Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtctcttggctgcactgacattatgcgctatggatctggtagtctttgagataattagggttttttctctttggccggaggtgaatttgcgggggtagtcggattgaagtagggtgactgctccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGTTTCAGTTCCCGGAGGGTACTGTGGAGTTGTACGCCGAGAAGGTGAACAA

Basic information

species Physcomitrella patens
transcript PP1S127_74V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S127_74V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G093902_T02 (Zea mays), 3'ss of exon 2
gtgagtctcttggctgcactgacattatgcgctatggatctggtagtctttgagataattagggttttttctctttggccggaggtgaatttgcgggggtagtcggattgaagtagggtgactgctccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGTTTCAGTTCCCGGAGGGTACTGTGGAGTTGTACGCCGAGAAGGTGAACAA
                                             || | || | |  |    |     || |   |  |  || ||    | |   |||    | | ||   |    |  | | || |   |||| |||||||| || ||||||||||| ||||| || ||||| |||||| | ||  | ||||||||||||  ||| ||| | ||||| ||||||||||||||
---------------------------------------------gtatgtgcgcttctacaagccccgtccc---gatcacagctgtgaatacttcggttactgaactgtttttttctctc-gatctcgcttagGCGAGAAGGGCCGGAGGATCAGGGAGCTGACTTCTGTGGTTCAGAAGCGCTTCAACTTCCCGGAGGGTGGTGTTGAGCTCTACGCAGAGAAGGTGAACAA

upper sequence: PP1S127_74V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G099352_T04 (Zea mays), 3'ss of exon 1
gtgagtctcttggctgcactgacattatgcgctatggatctggtagtctttgagataattagggttttttctctttggccggaggtgaatttgcgggggtagtcggattgaagtagggtgactgctccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGTTTCAGTTCCCGGAGGGTACTGTGGAGTTGTACGCCGAGAAGGTGAACAA------------------------------------------------------------------------
                                                                                                                                       | |||||||| || ||||||||||| || |||||||| || |||||||||||  | ||||| |||  |   || ||| | || |||||||||||   |||                                                                        
---------------------------------------------------------------------------------------------------------------------------------------gcgagaagggccgtaggatcagggagctcacctccgtcgtccagaagaggttcaacttccctgagaatggcgttgagctttatgccgagaaggtcgtcaaCCGTGGGCTCTGTGCCATCGCGCAGGCCGAGTCCCTCCGTTACAAGCTCCTCGGTGGCCTTGCCGTCCGCAG

upper sequence: PP1S127_74V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA20G21190.1 (Glycine max), 3'ss of exon 2
gtgagtctcttggctgcactgacattatgcgctatggatctggtagtctttgagataattagggttttttctctttggccggaggtgaatttgcgggggtagtcggattgaagtagggtgactgctccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGTTTCAGTTCCCGGAGGGTACTGTGGAGTTGTACGCCGAGAAGGTGAACAA
                           | || | ||  |||| | || ||  ||||  ||    ||||| | ||||||       ||||| |       |  |    ||    | || |   ||        |||||||||||||| | || ||||||||||| ||||| ||||| |||||||||||  |||| || |||   | ||| ||  | || || || ||||| |||||
--------------------------gttcg-tgtgcctctgtt-gtgttctagattcttctattttttcccctttggt----attgaatat-------tgatttcttttttcttggttatttgtattt--atagGTGAGAAGGGAAGGAGAATCAGGGAACTTACCTCGGTGGTTCAGAAGAGGTTCAAGTTTCCCGAGAACAGTGTTGAACTTTATGCTGAAAAGGTCAACAA

upper sequence: PP1S127_74V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA09G28440.1 (Glycine max), 3'ss of exon 2
gtgagtctcttggctgcactgacattatgcgctatggatctggtagtctttgagataattagggttttttctctttggccggaggtgaatttgcgggggtagtcggattgaagtagggtgactgctccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGTTTCAGTTCCCGGAGGGTACTGTGGAGTTGTACGCCGAGAAGGTGAACAA
                           |||| | ||  ||||  |   |  |  | | ||  ||  |    | ||    |  |  | | ||             | ||||   |    ||| ||        |||||||||||||| | || || |||||||| ||||| ||||| |||||||||||  | || || |||   | ||| ||| | || || |||||||| |||||
--------------------------gtgcgtt-tgtttctgtaaccttccgttaaatttgtgggatcgaattttcattcataaattagttcca---------tgaattgtgttgttttgattgtatat--atagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGTTCAAATTTCCCGAGAACAGTGTCGAGCTTTATGCTGAGAAGGTCAACAA

upper sequence: PP1S127_74V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA10G26790.1 (Glycine max), 3'ss of exon 2
gtgagtctcttggctgcactgacattatgcgctatggatctggtagtctttgagataattagggttttttctctttggccggaggtgaatttgcgggggtagtcggattgaagtagggtgactgctccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGTTTCAGTTCCCGGAGGGTACTGTGGAGTTGTACGCCGAGAAGGTGAACAA
         || | ||  |     || ||  ||  | ||||  || | ||     | |||       |||    |||      ||    |||      ||  |    ||    |  ||| | |      |  |||||||||||||| | || || |||||||| ||||| ||||| |||||||||||  |||| || |||   | ||| ||  | || || || ||||| |||||
--------gttcg-tgtgcccgtgttctgttctg-gaatcttctatttttc----ttattttacccctttggaattgaatattggaagtttttgttttgtttttttttt----tttggttattttgtattaatagGTGAGAAGGGAAGGAGAATAAGGGAACTTACCTCTGTGGTTCAGAAGAGGTTCAAGTTTCCCGAGAACAGTGTCGAACTTTATGCTGAAAAGGTCAACAA

upper sequence: PP1S127_74V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA16G33240.1 (Glycine max), 3'ss of exon 2
gtgagtctcttggctgcactgacattatgcgctatggatctggtagtctttgagataattagggttttttctctttggccggaggtgaatttgcgggggtagtcggattgaagtagggtgactgctccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGTTTCAGTTCCCGGAGGGTACTGTGGAGTTGTACGCCGAGAAGGTGAACAA
                                        ||   || |||     |  |    ||  || | |     || |  |   ||         |     ||||   |    ||| ||        |||||||||||||| | || || |||||||| ||||| ||||| |||||||||||  | ||||| ||    | ||| ||| | || || |||||||| |||||
---------------------------------------gtgcgtgtgtttctagaaccttccattacttttgtggaatcgaatttcggttcattcattca--taaattgtgttgttttgattgtatat--atagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGTTCAAATTCCCCGAAAACAGTGTCGAGCTTTATGCTGAGAAGGTCAACAA

upper sequence: PP1S127_74V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA16G33230.1 (Glycine max), 3'ss of exon 2
gtgagtctcttggctgcactgacattatgcgctatggatctggtagtctttgagataattagggttttttctctttggccggaggtgaatttgcgggggtagtcggattgaagtagggtgactgctccctg---gtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGTTTCAGTTCCCGGAGGGTACTGTGGAGTTGTACGCCGAGAAGGTGAACAA
                                             ||   || | |   |||    ||   |   |    |||   |||||| |     |  ||      || | | |||  |      |     |||||||||||||| | || || |||||||| ||||| ||||| |||||||||||  | ||||| ||    |  || ||| | || || |||||||| |||||
---------------------------------------------gtgcgtgtgttt-ctagaaccttccattactttgtggaatcgaatttccattcat--tcattcataaattgtgtgtttttatggtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGTTCAAATTCCCCGAAAACAGCGTCGAGCTTTATGCTGAGAAGGTCAACAA

upper sequence: PP1S127_74V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA10G26890.1 (Glycine max), 3'ss of exon 2
gtgagtctcttggctgcactgacattatgcgctatggatctggtagtctttgagataattagggttttttctctttggccggaggtgaatttgcgggggtagtcggattgaagtagggtgactgctccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGTTTCAGTTCCCGGAGGGTACTGTGGAGTTGTACGCCGAGAAGGTGAACAA
         || | ||  |   | || ||  ||  | ||||  || | ||        ||    ||||| | | ||    |||  ||||| |  ||  ||  | || ||    | || | | |      |  |||||||||||||| | || || |||||||| ||||| ||||| |||||||||||  |||| || |||   | ||| ||  | || || || ||||| |||||
--------gttcg-tgtgcccgcgttctgttctg-gaatcttctatttttc-------tt----tttttacccctt---tggaattgaatat-tggaagtttttggtttttttttggtt-attttgtattaatagGTGAGAAGGGAAGGAGAATAAGGGAACTTACCTCTGTGGTTCAGAAGAGGTTCAAGTTTCCCGAGAACAGTGTTGAACTTTATGCTGAAAAGGTCAACAA

upper sequence: PP1S127_74V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: Vv04s0008g01750.t01 (Vitis vinifera), 3'ss of exon 2
gtgagtctcttggctgcactgacattatgcgctatggatctggtagtctttgagataattagggttttttctctttggccggaggtgaatttgcgggggtagtcggattgaagtagggtgactgctccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGTTTCAGTTCCCGGAGGGTACTGTGGAGTTGTACGCCGAGAAGGTGAACAA
                              |  |    | |    |  ||  ||| |  |  |||||  |    ||  ||  |||    |||    || |    || ||||  |    |   |  |   |   |||||| ||||||  |||||||||||| ||||| || ||||| |||||||||||| | || || ||    | ||||||| | || || ||||| || |||||
----------------------------ttgtcacttgtttctcggcattgaagaaa--tgtggtttcatgctgttaaccatagg---gttttattggttgaatgggttgattttttattttttattttt--cagGTGAAAAGGGAAAAAGGATCAGGGAGCTGACTTCAGTGGTTCAGAAGAGGTTTAAATTTCCTGAAAACAGTGTGGAGCTTTATGCTGAGAAAGTTAACAA

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|18357986|gb|BJ190045.1|BJ190045
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|162269608|gb|FC445567.1|FC445567
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208345907|gb|DC901792.1|DC901792
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208390380|gb|DC933425.1|DC933425
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|18362800|gb|BJ194872.1|BJ194872
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGG
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGG-
EST: gi|67719364|gb|BJ969623.1|BJ969623
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|67710084|gb|BJ965848.1|BJ965848
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|162250491|gb|FC428394.1|FC428394
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208369055|gb|DC931301.1|DC931301
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|100396698|gb|BY953782.1|BY953782
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGGATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|67726750|gb|BJ977009.1|BJ977009
EST:     CTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: CTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGG-
EST: gi|208389753|gb|DC938315.1|DC938315
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|67720656|gb|BJ970915.1|BJ970915
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGACCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|67702161|gb|BJ962394.1|BJ962394
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGACCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|18375462|gb|BJ207040.1|BJ207040
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208359816|gb|DC938921.1|DC938921
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208368268|gb|DC951520.1|DC951520
EST:     ATGCGAACTGAGATCATCATTCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGG
genomic: ATGCGAACTGAGATCATCA-TCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAA-GGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGG
EST: gi|67724111|gb|BJ974370.1|BJ974370
EST:     TATGNGANNTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208360035|gb|DC934924.1|DC934924
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTAGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|67716966|gb|BJ967225.1|BJ967225
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208354216|gb|DC902458.1|DC902458
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|18343235|gb|BJ175273.1|BJ175273
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAAGAGG
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAA-GAGG
EST: gi|162250490|gb|FC428393.1|FC428393
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208393922|gb|DC938477.1|DC938477
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|100413536|gb|BY956717.1|BY956717
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|162269609|gb|FC445568.1|FC445568
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|18327450|gb|BJ159453.1|BJ159453
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208365722|gb|DC935791.1|DC935791
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208347898|gb|DC917605.1|DC917605
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|18326387|gb|BJ158386.1|BJ158386
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208357230|gb|DC942780.1|DC942780
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|37850730|gb|BJ608738.1|BJ608738
EST:     GCGAACTGAGATCATCCATCCGCGCAAACCCGTACTCCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: GCGAACTGAGATCAT-CATCCGCGC-AACCCGTACT-CAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|67727659|gb|BJ977918.1|BJ977918
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208392206|gb|DC949596.1|DC949596
EST:     TATGCGNACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTA-TNG                         GTGAGAAGGGACGNAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|67718572|gb|BJ968831.1|BJ968831
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|162178849|gb|FC354781.1|FC354781
EST:     CGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: CGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208394797|gb|DC915618.1|DC915618
EST:     TCCGCGCNACCCGTACTCAGAATGTATT-G                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208393333|gb|DC904007.1|DC904007
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208351580|gb|DC905729.1|DC905729
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|100385509|gb|BY969846.1|BY969846
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208379651|gb|DC903706.1|DC903706
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|67718261|gb|BJ968520.1|BJ968520
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|18344144|gb|BJ176183.1|BJ176183
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208364553|gb|DC930943.1|DC930943
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208366877|gb|DC951364.1|DC951364
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|162278152|gb|FC454387.1|FC454387
EST:     CGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: CGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|18369419|gb|BJ201506.1|BJ201506
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208374394|gb|DC940695.1|DC940695
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208392633|gb|DC933991.1|DC933991
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|18356278|gb|BJ188337.1|BJ188337
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|208368343|gb|DC935684.1|DC935684
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|67727005|gb|BJ977264.1|BJ977264
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
EST: gi|18357436|gb|BJ189495.1|BJ189495
EST:     TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGG                         GTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT
genomic: TATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGT

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 1 RNA-Seqlibrary.


Block sizes: 35 (upstream exon), 35 (downstream exon)
Score: 41

CGAGAGCTTGCTGAGGACGGCTATTCCGGAGTGGAGGTGCGCGTCACGCCTATGCGAACTGAGATCATCATCCGCGCAACCCGTACTCAGAATGTATTGGgtgagtctct ... tccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGTTTCAGTTCCCGGAGGGTACTGTGGAGTTGTACGCCGAGAAGGTGAACAA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggaggtgaatttgcgggggtagtcggattgaagtagggtgactgctccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGTTTCAGTTCCCGGAGGGTACTGTGGAGTTGTACGCCGAGAAGGTGAACAA
                                         ctgctccct  CT-rich tract
     tgaattt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtctcttggctgcactgacattatgcgctatggatctggtagtctttgagataattagggttttttctctttggccggaggtgaatttgcgggggtagtcggattgaagtagggtgactgctccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGTTTCAGTTCCCGGAGGGTACTGTGGAGTTGTACGCCGAGAAGGTGAACAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG