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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggaggtgttgggattggggcgaggtgtgtgaggggtgggatgcatggagggaattgagtgatatggtggatagtgaatggattttgtggtggaatggaaaagaaatgggatgttgaggggattgacatagcgtggttggttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCGTTAAGCTAGTATCAGGATGGTGGTTGCTTATAAAAGTAGTGTTTCATTA

Basic information

species Physcomitrella patens
transcript PP1S114_146V6.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S114_146V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: LOC_Os11g29190.5 (Oryza sativa), 3'ss of exon 2
gtaggaggtgttgggattggggcgaggtgtgtgaggggtgggatgcatggagggaattgagtgatatggtggatagtgaatggattttgtggtggaatggaaaagaaatgggatgttgaggggattgacatagc--gtggttggttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCGTTAAGCTAGTATCAGGATGGTGGTTGCTTATAAAAGTAGTGTTTCATTA
                               |    | | |||||     |||  |||||   || ||     || |     | ||  |   ||  ||  | |||||    ||  | ||| |  ||| ||  ||     ||||  ||      | | | |||   |   |||  |    | | ||   | | ||   | |  | ||  |||||||     |   |  |      ||                 
------------------------------ctttttgttcggatgataccaggttattgacacatctgtgatctaattgt--gtttcagctatgccatcaagaagaaggatgagatcgagcgtgttgccaagGCCAACCGTTGAGTGGTGATCCCATGTCATTGTGCTAAAGCTC----TTGCGCTGTTTGGCAGGACTATACTTTTTGCTAGTAATTTAAGCCTTTTCAGACCTA-----------------

upper sequence: PP1S114_146V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: LOC_Os11g29190.4 (Oryza sativa), 3'ss of exon 3
gtaggaggtgttgggattggggcgaggtgtgtgaggggtgggatgcatggagggaattgagtgatatggtggatagtga--atggattttgtggtggaatggaaaagaaatgggatgttgaggggattgacatagcgtggttggttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCGTTAAGCTAGTATCAGGATGGTGGTTGCTTATAAAAGTAGTGTTTCATTA---
                                                                ||      || || |   |  || |||   |    | | |    |   || | ||||      ||   |    |  |||  |||  |||||| ||||||||||||||||| |||||||||||||| ||||| ||||| |||| || | ||      ||| |  |||    ||||  |  ||     ||    
---------------------------------------------------------------gtacaacacattgtcatggtacatcttgctttttgttcggatgataccaggttattgacacatctg---tgatctaattg--tgtttcagCTATGCCATCAAGAAGAAGGATGAGATCGAGCGTGTTGCCAAGGCCAACCGTTGAG-TGGTGATCCCATG-TCATTGTGC-TAAAGCTCTTGCGCTGTTTGGC

upper sequence: PP1S114_146V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: LOC_Os01g01060.1 (Oryza sativa), 3'ss of exon 3
gtaggaggtgttgggattggggcgaggtgtgtgaggggtgggatgcatggagggaattgagtgatatggtggatagtgaatggattttgtggtggaatggaaaagaaatgggatgttgaggggattgacatagcgtggttggt-tgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCGTTAA--GCTAGTATCAGGATGGTGGTTGCTTATAAAAGTAGTGTTTCATTA-
                                                                                |  || |||      | | ||   |||||| |           ||  |           || | ||| ||||||| ||||||||||||||||| ||||| |||||||| ||||| || || |||| |  |||     ||     |||  ||||   |    | |  || || |  
-------------------------------------------------------------------------------gtaaatcttgcttctcatttgat--gaaatgaggctactgacacatccatgctctaattctgatatgttacagCTATGCCATCAAGAAGAAGGATGAGATTGAGCGTGTTGCCAAGGCGAACCGTTGAGTGCTGAACCCATCTCAGTG--TGCTCG-AGCTATTGCCTTGCACTGT

upper sequence: PP1S114_146V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GRMZM2G078985_T01 (Zea mays), 3'ss of exon 3
gtaggaggtgttgggattggggcgaggtgtgtgaggggtgggatgcatggagggaattgagtgatatggtggatagtgaatggattt-tgtggtggaatggaaaagaaatgggatgttgaggggattgacatagcgtggttggttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCGTTAAGCTAGTATCAGGATGGTGGT-TGCTTATAAAAGTAGTGTTTCATTA
                                                                |||  |  ||  ||  ||| | | | |||| |  |       |  || |||||  |  |   | |   |  |   ||  |||| ||||||||||||||||||||||||||||||| |||||||| ||||| ||||| |||| || | |     | ||  ||||   |||  |  || | |   |   | 
---------------------------------------------------------------gtata-tatatcctgtctggctatatttggttgtttttttcctatctgcgatgtgaattgtgctcattcatggcaattc-ttgtcacagCTACGCCATCAAGAAGAAGGACGAGATTGAGCGTGTTGCCAAGGCCAACCGTTGAG-TGGAGCTTGTATCCTGGTGCACTTGCACTAGAACTACGTTTCTG

upper sequence: PP1S114_146V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GRMZM2G156673_T03 (Zea mays), 3'ss of exon 2
gtaggaggtgttgggattggggcgaggtgtgtgaggggtgggatgcatggagggaattgagtgatatggtggatagtgaatggat-tttgtggtggaatggaaaagaaatgggatgttgaggggattgacatagcgtggttggttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCGTT-----AAGCTAGTATCAGGATGGTGGTTGCTTATAAAAGTAGTGTTTCATTA
                                                                        ||  ||  ||  |  || | ||  |   |  |        |||||  |   | |     | | |    |  |||| |||| |||||||||||||||||||||||||| |||||||| ||||| ||||| ||||      |||| |||||  | ||     |||     ||| |  | | |     
------------------------------------------------------------------gtacatatgttgcctgtttgcttcttgtctatctgtgattccgcacgatgtgaaattgttctcattcgtgccaattcttgttacagTTACGCCATCAAGAAGAAGGACGAGATTGAGCGTGTTGCCAAGGCCAACCGTTGAACTGAGCTTGTATCCTGGTGCACTCTGCGCTGGAAACTTTTATGT-----

upper sequence: PP1S114_146V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: Vv04s0043g00440.t01 (Vitis vinifera), 3'ss of exon 4
gtaggaggtgttgggattggggcgaggtgtgtgaggggtgggatgcatggagggaattg-agtgatatggtggatagtgaatggattttgtggtggaatggaaaagaaatgggatgttgaggggattgacatagcgtggttggttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCGTTAAGCTAGTATCAGGATGGTGGTTGCTTATAAAAGTAGTGTTTCATTA-
                   |    || |   | ||   |           |    |||| | ||||    |   |  | | ||  || |||     | |        | |   |||||| |  || ||   ||   |   ||  | |  |||||||||||||||||| ||||| ||||| ||||| || ||||| || || |||| || | | |  ||  |  |||      | |    |  | |   | |  
-------------------gtaaaagatagcttagatatatctcttgaaaaatatattgcactgattctctctgtttttagtgagttctgttccctattctggtctta-taatatgttg-gctgactgtgttatattacatgtatatctcagCTACGCCATCAAGAAAAAGGATGAGATTGAGCGAGTTGCCAAGGCTAACCGTTGAGATTGGAGGAGCTTCATGGCAAGAGAGAGTTTTGAT-TGCAACTGT

upper sequence: PP1S114_146V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: EDP01658 (Chlamydomonas reinhardtii), 3'ss of exon 6
gtaggaggtgttgggattggggcgaggtgtgtgaggggtgggatgcatggagggaattgagtgatatggtggatagtgaatggattttgtggtggaa-tggaaaagaaatgggatgttgaggggattgacatagcgtggttggttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCGTTAAGCTAGTATCAGGATG-GTGGTTGCTTATAAAAGTAGTGTTTCATTA-
                                                || | |       ||   |   | |  | |  |  |     |    | | | |  |||  ||  | |  |||     || ||| |      |  |  | | |||||||||||||||||||||||||||||||||||| |||||||| ||||| || |||   || | ||| | | |  |  ||  |        | |   ||  | 
-----------------------------------------------gggcgagcggcacatgcattacggcactgcgcctccaccacattcaagcacttgtgaagttattcgctcctgactt--ttcacacaa----atgtgccgcg-cagctACGCCATCAAGAAGAAGGACGAGATCGAGCGCGTGGCCAAGGCCAACCGCTAAAGGAGCAGCAGCAGGTGCTGCCGCGGAGGTCGCAGGAGCAGCAGCAG

upper sequence: PP1S114_146V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: EFJ18003 (Selaginella moellendorffii), 3'ss of exon 4
gtaggaggtgttgggattggggcgaggtgtgtgaggggtgggatgcatggagggaattgagtgatatggtggatagtgaatggattttgtggtggaatggaaaagaaatgggatgttgaggggattgacatagcgtggttggttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCGTTAAGCTAGTATCAGGATGGTGGTTGCTTATAAAAGTAGTGTTTCATTA
                                                                    ||   |  |  || | | | |     |  | ||||  || |  ||               | |   ||| ||| |||   |||||| || ||||| ||||||||||||||||| ||||| ||||| || ||||||| |                                             
--------------------------------------------------------------------gtacttcctacattgttctagctcatgctttgaaagaaactaagagcc------------ccttctgtgcttgtttgcatcagCTATGCGATCAAAAAGAAGGACGAGATCGAACGTGTTGCCAAGGCAAATCGTTGA---------------------------------------------

upper sequence: PP1S114_146V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: EFJ37091 (Selaginella moellendorffii), 3'ss of exon 4
gtaggaggtgttgggattggggcgaggtgtgtgaggggtgggatgcatggagggaattgagtgatatggtggatagtgaatggattttgtggtggaatggaaaagaaatgggatgttgaggggattgacatagcgtggttggttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCGTTAAGCTAGTATCAGGATGGTGGTTGCTTATAAAAGTAGTGTTTCATTA
                                                                    ||   |  |  || | | | |     |  | ||||  || |  ||  |            | |   ||| ||| |||   |||||| || ||||| ||||||||||||||||| ||||| ||||| || ||||||| |       |             | ||||     |    |  | | |
--------------------------------------------------------------------gtacttcctacattgttctagctcatgctttgaaagaaactaagagct------------ccttctgtgcttgtttgcatcagCTATGCGATCAAAAAGAAGGACGAGATCGAACGTGTTGCCAAGGCAAATCGTTGAAGAGAATTTTTTCCACCACAGGTTTATTGTTTTCACTTCGCTTGA

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|15727523|gb|BI740334.1|BI740334
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|67698006|gb|BJ958239.1|BJ958239
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|162221761|gb|FC397093.1|FC397093
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|162221762|gb|FC397094.1|FC397094
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|208353030|gb|DC910123.1|DC910123
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|162214167|gb|FC390213.1|FC390213
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|18337436|gb|BJ169460.1|BJ169460
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|162268602|gb|FC443656.1|FC443656
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|162217305|gb|FC392045.1|FC392045
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|67704507|gb|BJ964740.1|BJ964740
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGA
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGA
EST: gi|67725017|gb|BJ975276.1|BJ975276
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|67710283|gb|BJ965946.1|BJ965946
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAA
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAA
EST: gi|162204961|gb|FC380643.1|FC380643
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|67724208|gb|BJ974467.1|BJ974467
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCTAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|67726813|gb|BJ977072.1|BJ977072
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|162214166|gb|FC390212.1|FC390212
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|208396170|gb|DC923964.1|DC923964
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|162259284|gb|FC436188.1|FC436188
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|67726078|gb|BJ976337.1|BJ976337
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|67716606|gb|BJ966866.1|BJ966866
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|67717563|gb|BJ967822.1|BJ967822
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|22491782|gb|BU051705.1|BU051705
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAG
EST: gi|162217307|gb|FC392047.1|FC392047
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|67725126|gb|BJ975385.1|BJ975385
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|67716500|gb|BJ966760.1|BJ966760
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|162204962|gb|FC380644.1|FC380644
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|67721879|gb|BJ972138.1|BJ972138
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|67722095|gb|BJ972354.1|BJ972354
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|18340238|gb|BJ172266.1|BJ172266
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|67721704|gb|BJ971963.1|BJ971963
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|67720521|gb|BJ970780.1|BJ970780
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|162166350|gb|FC342943.1|FC342943
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|208389651|gb|DC938269.1|DC938269
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|67709628|gb|BJ965444.1|BJ965444
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|162217308|gb|FC392048.1|FC392048
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|67574589|gb|BJ947413.1|BJ947413
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|18340778|gb|BJ172809.1|BJ172809
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|162259285|gb|FC436189.1|FC436189
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|37846219|gb|BJ604227.1|BJ604227
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
EST: gi|67723703|gb|BJ973962.1|BJ973962
EST:     GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAG                         CTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG
genomic: GAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCG

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: 299

TGACGACGGGTGCGCGAGAGTCGGCGTTCAGGAACATCAAGACGATCGCGGAGTGCTTGGCGGACGAGTTGATAAACGCGGCCAAGGGTTCGTCGAACAGgtaggaggtg ... gttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCGTTAAGCTAGTATCAGGATGGTGGTTGCTTATAAAAGTAGTGTTTCATTA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggaaaagaaatgggatgttgaggggattgacatagcgtggttggttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCGTTAAGCTAGTATCAGGATGGTGGTTGCTTATAAAAGTAGTGTTTCATTA
                          gattgac  putative branch site (score: 299)
     aaagaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggaggtgttgggattggggcgaggtgtgtgaggggtgggatgcatggagggaattgagtgatatggtggatagtgaatggattttgtggtggaatggaaaagaaatgggatgttgaggggattgacatagcgtggttggttgtgacagCTACGCCATCAAGAAGAAGGACGAGATCGAGCGTGTGGCCAAAGCCAATCGTTAAGCTAGTATCAGGATGGTGGTTGCTTATAAAAGTAGTGTTTCATTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG