Skip to another splice site:
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGGATTAAGACCCGCAAGCGGAACATTGCAGCTCCTTTGGACCCTGCATCATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggccttctgtgggtgtaccatttgcatttcatatgttatttctgtcattgagatgtatgcatttagatttatgaaatatccttgatgtgatatata...

Basic information

species Zea mays
transcript GRMZM5G877316_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G877316_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os11g21990.1 (Oryza sativa), 5'ss of exon 3
GCGGATTAAGACCCGCAAGCGGAACATTGCAGCTCCTTTGGACCCTGCATCATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggccttctgtgggtgtaccatttgcatttcatatgttatttctgtcattgagatgtatgcatttagatttatgaaatatccttgatgtgatatata------
|||||||||||||||||| ||||| ||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||| |||||||| |||  |        | | ||  ||| |||  |    ||  | ||||| |  |  |      |    | || ||||||  ||  |||  | ||||      
GCGGATTAAGACCCGCAAACGGAATATTGCTGCTCCTTTGGACCCTGCATCATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGCTGGAGACCTGgttagccctgttaaa----catccttgacatgtcacctaactttcgtctcatttatcttcagttgggtgttctgataaaatat--ttattgttgtctatacttttt

upper sequence: GRMZM5G877316_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA18G47780.1 (Glycine max), 5'ss of exon 3
-GCGGATTAAGACCCGCAAGCGGAACATTGCAGCTCCTTTGGACCCTGCATCATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggccttctgtgggtgtacca--tttgcatttcat--atgttatttctgtcattgagatgtatgcatttagatttatgaaatatcct-tgatgtgatatata------
 |||||||||||||||||| || || ||||| || ||  ||||||||||| ||||||| |||||| | |||||||||||| ||||||||| ||| |||||||| | |       ||  | |  ||   || |||||  |  |||||  || || |||  | |  | |   | | | ||  | | ||| |   |  ||| || | |       
CGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACCCTGCAGCATTCTCGGATGCAGTGGTCCAGATTTATTTGGATAATGCTGGTGATCTggtaatgttacggttgcattttgcagcctttcatttgtttaatgtttgttttg-catccacac-tgtctctctggtttattcatataactgattttgtaatttgtgcctgca

upper sequence: GRMZM5G877316_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA09G38530.1 (Glycine max), 5'ss of exon 3
GCGGATTAAGACCCGCAAGCGGAACATTGCAGCTCCTTTGGACCCTGCATCATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggc--------cttctgtgggtgtaccatttgcatttcatatgttatttctgtcattgagatgt--atgcatttagatttatgaaatatccttgatgtgatatata
|||||||||||||||||| ||||| ||||| || ||  ||||||||||| ||||||| |||||| | |||||||||||| ||||||||| ||| |||||||| | |         | |   |  || ||   ||||| || |||   |  | ||| ||  |||  | |  ||  |  |   ||| | |  | | ||||  |         
GCGGATTAAGACCCGCAAACGGAATATTGCTGCGCCGCTGGACCCTGCAGCATTCTCGGATGCAGTGGTCCAGATTTATTTGGATAATGCTGGTGATCTGgtaatgttaccgttgcattcatttgtttaatgtttgctttgcatccatactgtctctctctgatttattcataaaactgattttgtaatttctgcttgcag---------

upper sequence: GRMZM5G877316_T02 (Zea mays), 5'ss of exon 3
lower sequence: AT1G65220.1 (Arabidopsis thaliana), 5'ss of exon 3
GCGGATTAAGACCCGCAAGCGGAACATTGCAGCTCCTTTGGACCCTGCATCATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggccttctgtgggtgtaccatttgcatttcatatgttatt-tctgtcattgagatgt-atgcatttagatttatgaaat-atccttgatgtgatatata
||||||||||||||||||  |||| ||||| |||||| | ||||||||  | || ||||||||| | || ||||||||||||||||||| ||| ||||||||      || |  | || |    | |  |||| || |||| || | ||    | | ||||  ||||  |  | ||||||  |  |  ||| | ||   ||  
GCGGATTAAGACCCGCAAAAGGAATATTGCTGCTCCTCTCGACCCTGCTGCTTTTTCTGATGCACTAGTTCAGATTTATCTGGATAATGCTGGTGATCTGgtactttttttttcgtgttttaagtatttattt-atctgtttttatttgcttgtaaaatgtcgtgcaccttaacttatgactttgtttttgttttgtcttag-

upper sequence: GRMZM5G877316_T02 (Zea mays), 5'ss of exon 3
lower sequence: AT5G36230.1 (Arabidopsis thaliana), 5'ss of exon 3
GCGGATTAAGACCCGCAAGCGGAACATTGCAGCTCCTTTGGACCCTGCATCATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggccttctgtgggtgtaccatttgcatttcatatgttatttctgtcattgagatgtatgcatttagatt-tatgaaatatccttgatgtgatatata
|||||||||||||||||| ||||| ||||| |||||| ||||||||||| | || ||||||||| | ||||||||||| |  ||||||| ||| ||||||||  |      |  | || ||  ||||  || ||||   ||  |   |  ||     ||| |||| |||  || ||| |    |  ||| | || | ||  
GCGGATTAAGACCCGCAAACGGAATATTGCTGCTCCTCTGGACCCTGCAGCCTTTTCTGATGCAGTGGTCCAGATTTACCATGATAATGCTGGTGATCTGgtagga-----ttggtgtctagaatttttatgtcatgctttgatctggagat----gtgtttgcacttaacttatattacgcttgtttgct-tggtttag-

upper sequence: GRMZM5G877316_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv04s0023g00670.t01 (Vitis vinifera), 5'ss of exon 4
GCGGATTAAGACCCGCAAGCGGAACATTGCAGCTCCTTTGGACCCTGCATCATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggccttctgtgggtgta-ccatttgcatttcatatgttatttctgtcattgagatgtatgcatttagatttatgaaatatccttgatgtgatatata
|||||||||||||||||| ||||| |||||||| ||  ||||||||||| ||||  | |||||| | |||||||||||||||||||||| ||| |||||||| |    | |||||  || |  | | |   |||  | | | |  | | |||||  | |    |||  ||    ||||  |  | ||  |||         
GCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCCTGCAACATTTGCAGATGCAGTGGTCCAGATTTATCTGGATAATGCTGGTGATCTGgtaatttttcctgtgtctgaaatcctatatgttttgtgtttcacct-tatcattttggt----gcagctaa---tatggcaatttctaaatgcag------

upper sequence: GRMZM5G877316_T02 (Zea mays), 5'ss of exon 3
lower sequence: EFJ31357 (Selaginella moellendorffii), 5'ss of exon 3
GCGGATTAAGACCCGCAAGCGGAACATTGCAGCTCCTTTGGACCCTGCATCATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt--ctgtgggtgtaccatttgcatttcatatgttatttctgtcattgagatgtatgcatttagatttatgaaatatccttgatgtgatatata
|||||||||||||||||| ||||| ||||||  ||| ||||||||  | || ||| | ||||| || |||||||| ||  ||||| ||| ||| |||||||| ||   |   |  || | |    || |  ||||   ||  ||||  |  |  ||   | | |                                      
GCGGATTAAGACCCGCAAACGGAATATTGCAATTCCGTTGGACCCATCTTCTTTCGCGGATGCTATAGTCCAGATCTACTTGGATCATGCTGGTGATCTGgtgagaattatgccttgcgagcgtgatcttgatttttaat--tattctttcctctggtttttctag------------------------------------

upper sequence: GRMZM5G877316_T02 (Zea mays), 5'ss of exon 3
lower sequence: EFJ06557 (Selaginella moellendorffii), 5'ss of exon 3
GCGGATTAAGACCCGCAAGCGGAACATTGCAGCTCCTTTGGACCCTGCATCATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt--ctgtgggtgtaccatttgcatttcatatgttatttctgtcattgagatgtatgcatttagatttatgaaatatccttgatgtgatatata
|||||||||||||||||| ||||| ||||||  ||| ||||||||  | || ||| | ||||| || |||||||| ||  ||||| ||| ||| |||||||| ||   |   |  || |      || |  ||||   ||  ||||  |  |  ||   | | |                                      
GCGGATTAAGACCCGCAAACGGAATATTGCAATTCCGTTGGACCCATCTTCTTTCGCGGATGCTATAGTCCAGATCTACTTGGATCATGCTGGTGATCTGgtgagaattatgccttgcgaacgtgatcttgatttttaat--tattctttcctctggtttttctag------------------------------------

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|33093304|gb|CF053298.1|CF053298
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211046031|gb|FL194891.1|FL194891
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|18655177|gb|BM499982.1|BM499982
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211126109|gb|FL240308.1|FL240308
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|9254987|gb|BE345455.1|BE345455
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|87153853|gb|DY398642.1|DY398642
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|76912266|gb|DV164646.1|DV164646
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211256955|gb|FK951989.1|FK951989
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211261820|gb|FK952010.1|FK952010
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211256952|gb|FK951986.1|FK951986
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|78125566|gb|DV543950.1|DV543950
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211134644|gb|FL028665.1|FL028665
EST:     CATTCTCTGATGCAATTGTYCAGATTTATYTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAA
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAA
EST: gi|78108789|gb|DV527206.1|DV527206
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211046032|gb|FL194892.1|FL194892
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|71428140|gb|DR809190.1|DR809190
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|61117466|gb|DN558427.1|DN558427
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|22546180|gb|BU098491.1|BU098491
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211254497|gb|FK951965.1|FK951965
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAARGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211126102|gb|FL240301.1|FL240301
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|32944696|gb|CF049515.1|CF049515
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211126108|gb|FL240307.1|FL240307
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|78084825|gb|DV513218.1|DV513218
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211259391|gb|FK952004.1|FK952004
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTG-ATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211256944|gb|FK951978.1|FK951978
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTG-ATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211254505|gb|FK951973.1|FK951973
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|21809908|gb|BQ668226.1|BQ668226
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|19057716|gb|BM736383.1|BM736383
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211259379|gb|FK951992.1|FK951992
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211261819|gb|FK952009.1|FK952009
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|32944341|gb|CF049160.1|CF049160
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|50323109|gb|CO518235.1|CO518235
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|19436862|gb|BM953272.1|BM953272
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGGTTAGG                    
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATC----T--Ggttaggcctt ... ttgtt
EST: gi|19436862|gb|BM953272.1|BM953272
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGGTTAGG                    
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATC----T--Ggttaggcctt ... ttgtt
EST: gi|19436862|gb|BM953272.1|BM953272
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGGTTAGG                    
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATC----T--Ggttaggcctt ... ttgtt
EST: gi|19436862|gb|BM953272.1|BM953272
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGGTTAGG                    
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATC----T--Ggttaggcctt ... ttgtt
EST: gi|19436862|gb|BM953272.1|BM953272
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGGTTAGG                    
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATC----T--Ggttaggcctt ... ttgtt
EST: gi|19436862|gb|BM953272.1|BM953272
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGGTTAGG                    
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATC----T--Ggttaggcctt ... ttgtt
EST: gi|19436862|gb|BM953272.1|BM953272
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGGTTAGG                    
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATC----T--Ggttaggcctt ... ttgtt
EST: gi|211259393|gb|FK952006.1|FK952006
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211261817|gb|FK952007.1|FK952007
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211046035|gb|FL194895.1|FL194895
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211256957|gb|FK951991.1|FK951991
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211256954|gb|FK951988.1|FK951988
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211259389|gb|FK952002.1|FK952002
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211126103|gb|FL240302.1|FL240302
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211256947|gb|FK951981.1|FK951981
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|101399052|gb|EB821399.1|EB821399
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTTACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|19436922|gb|BM953332.1|BM953332
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|32943252|gb|CF048071.1|CF048071
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|22490114|gb|BU050037.1|BU050037
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211254506|gb|FK951974.1|FK951974
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211126104|gb|FL240303.1|FL240303
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211256945|gb|FK951979.1|FK951979
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCT-GATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|18655176|gb|BM499981.1|BM499981
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|111433449|gb|EE297766.1|EE297766
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|213173273|gb|FM196319.1|FM196319
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|18662176|gb|BM501785.1|BM501785
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|50323108|gb|CO518234.1|CO518234
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|33093098|gb|CF053092.1|CF053092
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|18655178|gb|BM499983.1|BM499983
EST:     GTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: GTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|19436921|gb|BM953331.1|BM953331
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|22543088|gb|BU093526.1|BU093526
EST:     AATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: AATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211256953|gb|FK951987.1|FK951987
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|33094426|gb|CF054420.1|CF054420
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211126106|gb|FL240305.1|FL240305
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATNATGGTGGASATCTG                         GAACTCGTCGCCAAAAGTAYTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211126107|gb|FL240306.1|FL240306
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCTGGATWATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
EST: gi|211256948|gb|FK951982.1|FK951982
EST:     CATTCTCTGATGCAATTGTCCAGATTTATCT-GATAATGGTGGAGATCTG                         GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC
genomic: CATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTAC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1544

GCGGATTAAGACCCGCAAGCGGAACATTGCAGCTCCTTTGGACCCTGCATCATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1161

GCGGATTAAGACCCGCAAGCGGAACATTGCAGCTCCTTTGGACCCTGCATCATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 890

GCGGATTAAGACCCGCAAGCGGAACATTGCAGCTCCTTTGGACCCTGCATCATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1023

GCGGATTAAGACCCGCAAGCGGAACATTGCAGCTCCTTTGGACCCTGCATCATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggcctt ... ttgttaccagGAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAG


Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCGGATTAAGACCCGCAAGCGGAACATTGCAGCTCCTTTGGACCCTGCATCATTCTCTGATGCAATTGTCCAGATTTATCTGGATAATGGTGGAGATCTGgttaggccttctgtgggtgtaccatttgcatttcatatgttatttctgtcattgagatgtatgcatttagatttatgaaatatccttgatgtgatatata

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC