Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTTCAATGGTGCTGATCTTCGGAACGTGTGCACTGAAGCTGGTATGGCTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtcttgcactccaatcttatacctttgcatggtggcggttaaaaattgacactcaaaatcgctgcaactcccgtttcag

Basic information

species Zea mays
transcript GRMZM2G171604_T01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G171604_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os02g10640.1 (Oryza sativa), 5'ss of exon 9
GGTTTCAATGGTGCTGATCTTCGGAACGTGTGCACTGAAGCTGGTATGGCTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtcttgcactccaatcttatacctttgcatggtggcggttaaaaattgacactcaaaatcgctgcaactcccgtttcag
|| |||||||| ||||||||||| ||||| ||||||||||| |||||||||||||||||||| ||  | || || || ||||| || ||||||||||||||||   |  ||  ||||   ||| ||       ||     || |||| | |||  | | ||   |   ||| | |     |||||
GGCTTCAATGGGGCTGATCTTCGCAACGTCTGCACTGAAGCGGGTATGGCTGCAATTCGTGCTGAACGGGACTACGTTGTCCATGAGGACTTCATGAAGgtgcgccgcattatactctcttct-atctaccaacacaccagctgttagacattatctcacagtttacatgcgaattgtacttcag

upper sequence: GRMZM2G171604_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA06G01200.1 (Glycine max), 5'ss of exon 11
GGTTTCAATGGTGCTGATCTTCGGAACGTGTGCACTGAAGCTGGTATGGCTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtcttgcactccaatcttatacctttgc-atggtggcggttaaaaattgacactcaaaatcgctgcaactcccg----tttcag
|| |||||||||||||||||||| || || || |||||||||||| ||  ||| |||||||||||  | ||||||||  | || | ||| ||||| |||||  ||   ||| ||     ||     |  ||    ||||      ||    ||| |      || |  ||    ||  |      |||||
GGGTTCAATGGTGCTGATCTTCGTAATGTTTGTACTGAAGCTGGTCTGTTTGCTATTCGTGCAGAACGTGATTATGTTATTCATGGAGATTTCATCAAGgta-atgtacttccaagttgataacggaatttaatgatggaattctttctgtattaaattcttaattgtctttgtctttctgatccttcag

upper sequence: GRMZM2G171604_T01 (Zea mays), 5'ss of exon 9
lower sequence: PP1S47_46V6.3 (Physcomitrella patens), 5'ss of exon 8
GGTTTCAATGGTGCTGATCTTCGGAACGTGTGCACTGAAGCTGGTATGGCTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgc-------attgtcttgcactccaatcttatacctttgcatggtggcggttaaaaattgacact--caaaatcgctgcaactcccgtttcag-----
|| ||||| || ||||||||||| ||||||||||||||||| || |||  ||| || || || ||  | || ||||| || || |||||||| ||||||||          |||  |||          | | |   ||| |   |    |  | |  || |   |    |  |    |||| |    |||||      
GGCTTCAACGGAGCTGATCTTCGCAACGTGTGCACTGAAGCGGGCATGTTTGCTATCCGGGCTGATCGGGACTATGTTGTACAAGAAGACTTTATGAAGgtattctctcagttgatttgtttagggggttgaaataattgtaatttattagacagattttaaggttgttcagttgatcgcaagtggaatttcatagaga

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|6865152|gb|AW360502.1|AW360502
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCCCGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|166658800|gb|EG295850.1|EG295850
EST:     TGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTG
genomic: TGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTG
EST: gi|6031547|gb|AW076449.1|AW076449
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCNCGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|6056657|gb|AW091062.1|AW091062
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|32944633|gb|CF049452.1|CF049452
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|4646615|gb|AI491435.2|AI491435
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCNCGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|37399723|gb|CF637196.1|CF637196
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|32165043|gb|CD670361.1|CD670361
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|31357228|gb|CD441585.1|CD441585
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|5714082|gb|AI944067.1|AI944067
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|6526814|gb|AW216083.1|AW216083
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|6466761|gb|AW191421.1|AW191421
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCNCGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|4314836|gb|AI438891.2|AI438891
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|211475169|gb|FL103102.1|FL103102
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|60352414|gb|DN219387.1|DN219387
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|148999623|gb|EE036608.2|EE036608
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|108953700|gb|EC364849.1|EC364849
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|6021736|gb|AW066664.1|AW066664
EST:     CTGCAATTCGTCCAGAGAGAGATTATGTAGTCCCCGAAGACTTCATGAAG                         GCTGTGCGGAAGTTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTCC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|60354245|gb|DN221218.1|DN221218
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|5055711|gb|AI734598.1|AI734598
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCNCGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|32934726|gb|CF039538.1|CF039538
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|5714026|gb|AI944011.1|AI944011
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|5055706|gb|AI734593.1|AI734593
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|24766495|gb|CA401646.1|CA401646
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|5871773|gb|AW018244.1|AW018244
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTNC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|5770142|gb|AI973316.1|AI973316
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|211286434|gb|FL421551.1|FL421551
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|148991470|gb|EE032982.2|EE032982
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|18177469|gb|BM378679.1|BM378679
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|5901371|gb|AW042471.1|AW042471
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCNCGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|31360667|gb|CD445024.1|CD445024
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|116825984|gb|EC869734.1|EC869734
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAGGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|166470095|gb|EG122515.1|EG122515
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGA
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGA
EST: gi|37376160|gb|CF624583.1|CF624583
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|148942357|gb|EC887375.2|EC887375
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|60394885|gb|DN227754.1|DN227754
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|78021531|gb|DV489918.1|DV489918
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|60400513|gb|DN233320.1|DN233320
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|67023560|gb|CO452309.1|CO452309
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|60343585|gb|DN210558.1|DN210558
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|213183526|gb|FM184624.1|FM184624
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAACCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|148959842|gb|EE153074.2|EE153074
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|5325025|gb|AI783216.1|AI783216
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|211350465|gb|FL030236.1|FL030236
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|148936300|gb|EC880383.2|EC880383
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTCC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|5030687|gb|AI714881.1|AI714881
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|67017632|gb|CO446381.1|CO446381
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|93284399|gb|EB676663.1|EB676663
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|211350464|gb|FL030235.1|FL030235
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|6056567|gb|AW090972.1|AW090972
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|149112654|gb|EE191389.2|EE191389
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|20803090|gb|BQ294140.1|BQ294140
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|213172053|gb|FM194173.1|FM194173
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|211274636|gb|FL463121.1|FL463121
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|24767949|gb|CA403082.1|CA403082
EST:     TTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: TTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|148928786|gb|EC873579.2|EC873579
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|213170621|gb|FM185980.1|FM185980
EST:     TTCGTGCAGAGAG-NATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: TTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|149111230|gb|EE294728.2|EE294728
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|32945400|gb|CF050219.1|CF050219
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|148979143|gb|EE026531.2|EE026531
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|5455652|gb|AI833342.1|AI833342
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|21828592|gb|BQ703276.1|BQ703276
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|5871267|gb|AW017738.1|AW017738
EST:     CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
EST: gi|37399313|gb|CF636983.1|CF636983
EST:     CTGCAATTCGTGCAGAGAGATATTATGTAGTCCACGAAGACTTCATGAAG                         GCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC
genomic: CTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTAC

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), 46 (downstream exon)
Score: 439

GGTTTCAATGGTGCTGATCTTCGGAACGTGTGCACTGAAGCTGGTATGGCTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTACAGCGCAGATTTTGGCAAAGAGTAATGTATGATGCTGGACAGATGCATAA


Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 299

GGTTTCAATGGTGCTGATCTTCGGAACGTGTGCACTGAAGCTGGTATGGCTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTACAGCGCAGATTTTGGCAAAGAGTAATGTATGATGCTGGACAGATGCATAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 397

GGTTTCAATGGTGCTGATCTTCGGAACGTGTGCACTGAAGCTGGTATGGCTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTACAGCGCAGATTTTGGCAAAGAGTAATGTATGATGCTGGACAGATGCATAA


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 242

GGTTTCAATGGTGCTGATCTTCGGAACGTGTGCACTGAAGCTGGTATGGCTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtc ... cccgtttcagGCTGTGCGGAAGCTAAATGATGCGAAAAAGCTGGAATCAAGTGCGCATTACAGCGCAGATTTTGGCAAAGAGTAATGTATGATGCTGGACAGATGCATAA


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTTTCAATGGTGCTGATCTTCGGAACGTGTGCACTGAAGCTGGTATGGCTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAGgtgcattgtcttgcactccaatcttatacctttgcatggtggcggttaaaaattgacactcaaaatcgctgcaactcccgtttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA