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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgcttctacaagccccgtcccgatcacagctgtgaatacttcggttactgaactgtttttttctctcgatctcgcttag

Basic information

species Zea mays
transcript GRMZM2G093902_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os07g41750.1 (Oryza sativa), 5'ss of exon 2
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgcttctacaagccccgtcccgatcacagctgtgaa-tacttcggttactgaactgtttttttctctcgatct--cgcttag-----------------
||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||| |||||||| ||||||  || ||    | |  | |   | | ||||   || | ||     ||| ||    ||  | |        | ||||||   |||| |                 
CGCGAGCTCGCGGAGGACGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGCGCCACCCGCACCCAGAACGTCCTCGgtgagttcgtgagttcgtggcat-ttctgatctgggcagcgaggcgattccgtg--cgatttatcccgggtgcgcgatctgatgctttggatgaatgcgatttcag

upper sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA16G33230.1 (Glycine max), 5'ss of exon 2
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgcttctacaagccccgtcccgatcacagctgtgaatac---ttcggttact---gaactgtttttttctctcgatctcgcttag
|| ||  | |||||||| || |||||||||||||| ||  | || || || ||||||||||||||||||||| | |||||| | || ||   |||||| |||  ||| | ||||| || |  |       |    |    ||||     |||  | | |    || ||| | ||| | | |        |||
CGTGAATTGGCGGAGGACGGTTACTCCGGCGTCGAAGTTAGGGTTACGCCGATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgtttctagaaccttccattactttgtggaatcgaatttccattcattcattcataaattgtgtgtttttatgg--tatatatag

upper sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 2
lower sequence: AT5G35530.1 (Arabidopsis thaliana), 5'ss of exon 2
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgt----gcgcttctacaagccccgtcccgatcacagctgtgaatacttcggttactgaactgtttttttctctcgatctcgcttag
 | ||||| || |||||||| ||||| || || ||||| |||||||| || ||||| || |||||||||||  | ||||| || ||||| ||||||||||||||||    ||  ||     | ||  |  | |||   | || |   |  |||  | |    | | ||  |   ||||  | | | ||||
AGAGAGCTTGCTGAGGATGGTTACTCTGGTGTTGAGGTTCGCGTCACTCCTATGCGTACTGAGATCATCATTAGAGCCACTCGTACTCAAAACGTTCTCGgtatgttggtgcattttcgttaaccttgctctgattcgacctttttttgtttctatgatatcaat-ttgatgattctctgtttggtttag

upper sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv11s0016g01380.t01 (Vitis vinifera), 5'ss of exon 2
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgcttctacaagccccgtcccgatcacagctgtgaatacttcggttactgaactgtttttttctctcgatctcgcttag
 | ||||| || |||||||||||||| || ||||||||  | || || || |||||||| || ||||||||| | ||||| || |||||||||||||| |||   |      ||   |      |   | || |   |  || |  || | || ||||      |||||  ||   |  |  ||||
AGAGAGCTGGCCGAGGATGGCTACTCTGGTGTCGAGGTTAGGGTTACGCCAATGCGCACTGAAATCATCATCAGAGCCACTCGTACTCAGAACGTTCTTGgtgattcaatggctttgattattcttgagttcgcgtttcagatttgttggttttctgactctccttttttgctttttggcttttag

upper sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv04s0008g01750.t01 (Vitis vinifera), 5'ss of exon 2
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgcttctacaagccccgtcccgatcacagctgtgaatacttcggttactga-actgtttttttctctcgatc-tcgcttag------------
 | || || || |||||||| ||||| |||||||| ||  | || || || |||||||| ||||| ||||| |||||||| ||||||||||| ||||||||||  |  |||| |  |       |    || |    | |  |   |    ||| |   | | || | |||| |   || | |||  |            
AGAGAACTTGCTGAGGATGGATACTCGGGCGTCGAAGTTAGGGTTACTCCGATGCGCACGGAGATTATCATTCGTGCCACTCGCACTCAGAATGTTCTCGgtaattttgcttttcaatttattattattattattattattcaatttatcattattattattattatattctttgtttcattgctgggaaaacgttggaa

upper sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 2
lower sequence: EDP07493 (Chlamydomonas reinhardtii), 5'ss of exon 2
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgc---------gcttct-------acaagccccgtcccgatcacagctgtga--atacttcggttactgaactgtttttttctctcgatctcgcttag
|||||||| || ||||||||||||||||| || ||||||||||| |||||||||||||| ||||| |||||||| || || |||||||||||||| || |||  | ||         || ||        |   | | | |  |   | | || |||    ||| ||  |  |||| || | |    | ||   |  |      
CGCGAGCTGGCCGAGGATGGCTACTCCGGTGTGGAGGTCCGCGTGACCCCCATGCGCACTGAGATTATCATCCGCGCTACTCGCACTCAGAACGTGCTGGgtgagcgcagagagcaggcctcggagggagatggggctcttggcagccgccgcggtgcctgtacatcactcgctgagctatgtgcagcgctttgtgactg----

upper sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 2
lower sequence: PP1S127_74V6.1 (Physcomitrella patens), 5'ss of exon 2
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgct---tctacaagccccgtcccgatcacagctgtgaatacttcggttactgaactgtttttttctctcgatctcgcttag----------------------------------------------
|| ||||| || ||||| ||||| ||||| || ||||| |||||||| || ||||| || |||||||||||||| || ||||| |||||||| ||  | |||  ||    |   |  ||   |    | |       | |||  | |  ||  | || | |    ||||| ||| | |     | | |                                               
CGAGAGCTTGCTGAGGACGGCTATTCCGGAGTGGAGGTGCGCGTCACGCCTATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctcttggctgcactgacattatgcgctatggatctggtagtctttgagataattagggttttttctctttggccggaggtgaatttgcgggggtagtcggattgaagtagggtgactgctccctggtag

upper sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 2
lower sequence: PP1S136_175V6.1 (Physcomitrella patens), 5'ss of exon 2
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgt---gcgcttctacaagccccgtcc-----cgatcacagctgtgaata-------cttcggttactgaactgtttttttctctcg-atctcgcttag---------------------------------
||||||||||| || ||||| ||||| ||||| ||||| || |||||||||||||| ||||||||||||||||| || ||||| || ||||||||| | |||  ||   | || |||    |     | |      | | || ||||||  ||        |    |||  |||  |    ||  |  || ||   | || |                                 
CGCGAGCTCGCTGAAGATGGTTACTCTGGCGTGGAGGTGCGTGTCACCCCCATGCGTACCGAGATCATCATCCGCGCTACCCGTACCCAGAACGTTTTGGgtgggtctcgagcctctctgggttttttgcacatttggttactgctgtgtttaagagtcattaaaattaacgaagcgcgagttggtgacgtatagggtttggaggattgaggtagggtgagtgtgttgttggcag

upper sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 2
lower sequence: PP1S31_178V6.1 (Physcomitrella patens), 5'ss of exon 2
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgc---gcttctacaagccc--------cgtcccgatc-acagctgtgaatacttcggttactgaactgtttttttctctcgatctcgcttag-----------------------------
||||||||||| || |||||||| || || || || || |||||||| |||||||| ||||||||||||||||| || |||||||| ||||| ||| | |||| ||     |||    ||||  |        ||||  | || | | |   |||   |  ||    | |   |   |||| | |||     | | ||                             
CGCGAGCTCGCCGAAGATGGCTATTCTGGAGTGGAAGTGCGCGTCACTCCCATGCGGACCGAGATCATCATCCGCGCTACCCGCACACAGAATGTTTTGGgtaggtaaccagctctgtcaagttcatcggtgacgtcgtgttctagaacgaagaaagatcagggcttttaggcggaattttttatcgtatgagttcagaggattaaggtagggcgtgttgtctgcag

upper sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 2
lower sequence: PP1S29_222V6.1 (Physcomitrella patens), 5'ss of exon 2
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgt---gcgcttctacaagccccgtcccgatcacagctgtgaatacttcggttactgaactgtttttttctctcgatctcgcttag------------------------------------------------------------
|| |||||||| || ||||| ||||||||||| ||||| ||||||||||||||||| |||||||| |||||||| ||||| ||||| ||||||||  | |||| ||    |    | |  ||        |  | |  | | ||   | || |     || ||| ||      | | ||    | | |                                                             
CGGGAGCTCGCCGAAGATGGGTACTCCGGCGTTGAGGTGCGCGTCACCCCCATGCGTACCGAGATTATCATCCGCGCCACTCGCACCCAGAACGTGTTGGgtacgttggacatcccgatgagttggtgggcttttagggttttgggcattttgccgggtggactcttggaaggttttgaatctgttaattttggtgctgagaatctaggtttttttttttttttttttttttttttttttttgatgtag

upper sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 2
lower sequence: PP1S41_146V6.1 (Physcomitrella patens), 5'ss of exon 2
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgc---gcttctacaagccccgtcccgatcacagctgtgaatacttcggttactgaactgttttt----ttctctcgatctcgcttag-------------------------------------------------
|| || || || |||||||||||||||||||| || || ||||| ||||||||||| ||||| || |||||||| || || || |||||||| ||  | |||  || |     | ||  || |    |   ||       |   |  || ||||||  ||||  |   ||    || ||  | |   |||  |                                                 
CGGGAACTTGCCGAGGATGGCTACTCCGGCGTTGAAGTGCGCGTGACCCCCATGCGTACCGAAATTATCATCCGCGCTACTCGGACTCAGAATGTGTTGGgttagttccgaattcctggaaacattattttgaattttttttcaaccacatcggtt--tgaatagcgattagggttgtccaggtagtgctcggtgctgtaaggaatctgggaattaaagtgcggtgagtgcgtggttggcag

upper sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 2
lower sequence: PP1S454_3V6.1 (Physcomitrella patens), 5'ss of exon 2
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc--ttctacaagccccgtcccga------tcacagct-----gtgaat--acttcggttactgaac-----tgtttttttctctcgatctcgcttag--------------------------------------------------------
|| ||||| || || ||||| ||||| ||||| || || |||||||| |||||||| ||||||||||||||||||||||| ||||| ||||||||  | |||| ||      ||||    ||   |    |       | |  | |     | |  |  | || |  ||   | |     ||||||||| | |   | |   ||                                                          
CGGGAGCTTGCTGAAGATGGGTACTCTGGCGTGGAAGTGCGCGTCACTCCCATGCGTACCGAGATCATCATCCGTGCCACTCGCACCCAGAACGTGTTGGgtacgttgatcgttctggcggcttagagtgggagagatttagggtttttgtgcgggtggagtttgagtaggaagcgaatgtgtttttttttttttttttttttttttttaaattattctttaacttggtcttgaggattgactgttcgatcttgtgatgcag

upper sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 2
lower sequence: EFJ34676 (Selaginella moellendorffii), 5'ss of exon 2
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgcttctacaagccccgtcccgatcacagctgtgaatacttcggttactgaactgtttttttctctcgatctcgcttag
|| ||||| ||||||||||| ||||| ||||| ||||| || ||||| || |||||||||||||| |||||||| || || || || |||| |||| | ||||  | | | | |       | |   |  | |     || ||  ||| | ||   |                             
CGGGAGCTAGCGGAGGATGGATACTCGGGCGTGGAGGTGCGTGTCACACCGATGCGCACCGAGATTATCATCCGGGCGACGCGAACGCAGAGCGTTTTGGgtaaattcccctgtttctaggcggattcactta-----gtaaaagctttgattctag-----------------------------

upper sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 2
lower sequence: EFJ34304 (Selaginella moellendorffii), 5'ss of exon 2
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgcttctacaagccccgtcccgatcacagctgtgaatacttcggttactgaactgtttttttctctcgatctcgcttag
|| ||| | || |||||||| ||||| ||||| ||||| || ||||| || ||||||||||||||||||||||| || || || || |||| |||| | ||||       |||  |     | |  | |||     ||  | |  ||| | ||   |                             
CGGGAGTTAGCAGAGGATGGATACTCGGGCGTGGAGGTGCGTGTCACACCGATGCGCACCGAGATCATCATCCGGGCGACGCGAACGCAGAGCGTTTTGGgtaaa-----ttcctctgtttctgggcggattc--acttagtaagctttgattctag-----------------------------

upper sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 2
lower sequence: EFJ31038 (Selaginella moellendorffii), 5'ss of exon 2
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgcttctacaagccccgtcccgatcacagctgtgaatacttcggttactgaactgtttttttctctcgatctcgcttag
|| ||| | || |||||||| ||||| ||||| ||||| || ||||| || |||||||| |||||||||||||| || || || || |||| |||| | ||||       |||  |     |    | |||     ||  | |  ||| | ||   |                             
CGGGAGTTAGCAGAGGATGGATACTCGGGCGTGGAGGTGCGTGTCACACCGATGCGCACTGAGATCATCATCCGGGCGACGCGAACGCAGAGCGTTTTGGgtaaa-----ttcctctgtttctaggcggattc--acttagtaagctttgattctag-----------------------------

upper sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 2
lower sequence: EFJ31296 (Selaginella moellendorffii), 5'ss of exon 2
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgcttctacaagccccgtcccgatcacagctgtgaatacttcggttactgaactgtttttttctctcgatctcgcttag
|| ||| | ||||||||||| ||||| ||||| ||||| || ||||| || |||||||||||||| |||||||| || || || || |||| |||| | ||||      || ||      |  | |    |||   ||  | |  ||| | ||   |                             
CGGGAGTTAGCGGAGGATGGATACTCGGGCGTGGAGGTGCGTGTCACACCGATGCGCACCGAGATTATCATCCGGGCGACGCGAACGCAGAGCGTTTTGGgtaaa----ctcctctgtttctaggcggattca---ctcagtaagctttgattctag-----------------------------

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|211411263|gb|FK965131.1|FK965131
EST:     CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
genomic: CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
EST: gi|74240382|gb|DT648296.1|DT648296
EST:     CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
genomic: CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
EST: gi|148973769|gb|EE024903.2|EE024903
EST:     CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
genomic: CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
EST: gi|211413802|gb|FK965136.1|FK965136
EST:     CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
genomic: CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
EST: gi|211411267|gb|FK965135.1|FK965135
EST:     CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGGAGCTGACTTCTGTGGTTCAGAAGCGC
genomic: CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGG-AGCTGACTTCTGTGGTTCAGAAGCGC
EST: gi|211411264|gb|FK965132.1|FK965132
EST:     CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
genomic: CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
EST: gi|91052942|gb|EB163360.1|EB163360
EST:     CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
genomic: CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
EST: gi|60347103|gb|DN214076.1|DN214076
EST:     GAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
genomic: GAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
EST: gi|76013473|gb|DT940643.1|DT940643
EST:     CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
genomic: CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
EST: gi|211411261|gb|FK965129.1|FK965129
EST:     CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
genomic: CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
EST: gi|88757758|gb|DY541899.1|DY541899
EST:     CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
genomic: CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
EST: gi|78109693|gb|DV528109.1|DV528109
EST:     CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
genomic: CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
EST: gi|211053864|gb|FL037807.1|FL037807
EST:     CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
genomic: CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
EST: gi|60398401|gb|DN231217.1|DN231217
EST:     CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
genomic: CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
EST: gi|50339749|gb|CO534875.1|CO534875
EST:     CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
genomic: CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
EST: gi|60346506|gb|DN213479.1|DN213479
EST:     CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
genomic: CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
EST: gi|74244112|gb|DT652026.1|DT652026
EST:     CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
genomic: CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
EST: gi|78024902|gb|DV493289.1|DV493289
EST:     CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCG                         GCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT
genomic: CATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCT

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: 48 (upstream exon), 49 (downstream exon)
Score: 220

CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCTTCAACTTCCCGGAGGGTGGTGTTGAGCTCTACGCAGAGAAGGTGAACAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 283

CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCTTCAACTTCCCGGAGGGTGGTGTTGAGCTCTACGCAGAGAAGGTGAACAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 140

CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCTTCAACTTCCCGGAGGGTGGTGTTGAGCTCTACGCAGAGAAGGTGAACAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 125

CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgc ... tctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCTTCAACTTCCCGGAGGGTGGTGTTGAGCTCTACGCAGAGAAGGTGAACAA


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgcttctacaagccccgtcccgatcacagctgtgaatacttcggttactgaactgtttttttctctcgatctcgcttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA