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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggttattgacctactgtatgtatttacgaatggtagattacatgttcttgttttatatcgtaattgtaataactgttacctgtggctctctgatatttcctgattttgtgcctatgtgtgcatcctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG

Basic information

species Zea mays
transcript GRMZM2G416120_T01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 13
gtgaggttattgacctactgtatgtatttacgaatggtagattacatgttcttgttttatatcgtaattgtaata-actgttacctgtggctctctgatatttcctgattttgtgcctatgtgt-gcatcctttcct--agATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG
                                           |||   |  ||||    || | | ||| | |  |||| ||   ||||  | ||||  ||   |  |    ||  ||||  |     ||||||||  |||| ||||||||||| ||||| |||||||||||||||||||||||||||||||||||| ||||||| |||||||||||||| |||||||| ||||||||||
-----------------------------------------acacacaatgatgttgagaatggaagttgaattgcactgctaggagtggtgccctgaagttatattttgacctgtatatgcatcatgacctttcctacagATCGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCATTGAATGCCACTAAAGCTGCTGTGGAAGAGGGTATTGTACCAG

upper sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA20G19980.1 (Glycine max), 3'ss of exon 13
gtgaggttattgacctactgtatgtatttacgaatggtagattacatgttcttgttttatatcgtaattgtaataactgttac-ctgtggctctctgatatttcctgattttgtgcctatgtgtgcatcctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG
                               | |||     ||   |  | ||| || ||    ||    |  | |   |  | ||| || |||   ||        | ||      ||    |||  |||||   |||||||||||||||| ||||| ||||||||||||||||||||||||||||| |||||| | ||||| ||||| |||||||| || |||||||| || || |
-------------------------------gtatgcctacttgtgtcattttggttaatggtttatccctggtgaacatcccactgaggttctgcaatgg---aaaaattgacatttaaaactgc--ccttttgcagATTGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACTGATGCATTAAATGCAACTAAGGCTGCTGTAGAGGAGGGCATAGTGCCTG

upper sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA10G25630.1 (Glycine max), 3'ss of exon 13
gtgaggttattgacctactgtatgtatttacgaatggtagattacatgttcttgttttatatcgtaattg-taataactgttacctgtggctctctgatatttcctgattttgtgcctatgtgtgcatcctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG
                                   ||     |||  |    | ||    |   | ||   |  | |   |  |||||||   ||||  ||  |   |||     | | ||       ||||    |||||||||||||||| ||||| |||||||||||||||||||||||||||||||||||  | ||||| ||||| |||||||| || || ||||||||| |||
---------------------------------gggggccgctacg-gccgctattgacaactatgatccctggtgaacatc-cctgtggggttctgcaatggcaaaatta---acatttgaaactgcccttctgcagATTGGAGGAGCCAGTGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCCTTAAATGCAACTAAGGCTGCTGTAGAGGAAGGCATTGTATCAG

upper sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA20G33910.1 (Glycine max), 3'ss of exon 13
gtgaggttattgacctactgtatgtatttacgaatggtagattacatgttcttgttttatatcgtaattgtaata---actgttacctgtggctctctgatatttcctgattttgtgcctatgtgtgcatcctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG
                          |||    ||   || ||||     |||| ||  |||    ||| ||      |||    ||| ||| | | | ||  |     |  |     ||       ||  ||||   |||||||||||||||| || || |||||||||||||||||||||||||||||||||||  | ||||| || || || ||||| || |||||||| ||||| |
-------------------------gtttgtttatttgagtttac-----cttgcttgctattaggattttatctggcacttcatcctatggttttgtcatgata---aaactaacatctgaaacctca--cttttgcagATTGGAGGAGCCAGTGAGGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCCTTAAATGCAACCAAGGCAGCTGTAGAGGAGGGCATAGTACCTG

upper sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA10G33680.1 (Glycine max), 3'ss of exon 13
gtgaggttattgacctactgtatgtatttacgaatggtagattacatgttcttgttttatatcgtaattgtaataactgttacctgtggctctctgatatttcctgattttgtgcctatgtgtgcatcctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG
                          |||    ||   || |||| |    |  | |||  || ||  ||      ||    | | ||| | | | ||      | |  ||   | | ||    | | ||||   |||||||||||||||| || || |||||||||||||||||||||||||||||||||||  | ||||| || || || ||||| || |||||||| |||||||
-------------------------gtttgtttatttgagtttaccttgcttgctgttaagtcttatctggtg---cttcatcatatggttttgtcatg----ataaaatta-acatctgaaaccttacttttgcagATTGGAGGAGCCAGTGAGGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCCTTAAATGCAACCAAGGCAGCTGTAGAGGAGGGCATAGTACCAG

upper sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 12
lower sequence: AT2G33210.1 (Arabidopsis thaliana), 3'ss of exon 12
gtgaggttattgacctactgtatgtatttacgaatggtagattacatgttcttgttttatatcgtaattgtaataactgttacctgtggctctctgatatttcctgattttgtgcctatgtgtgcatcctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG
                                    |||   ||||   ||||||   | |||  | |  ||    || |||  ||    | |  | |  || || || | | |  ||    |      |||  |||||||||||||| || ||  |||||||| |||| ||||| |||||||| || ||||| || ||||| |||||||| || || || ||||| ||||| ||||
------------------------------------gtaatgtacac-ctcttgtga-acatcagactaatag--gctattaa-tgca-ttattagtttattactaatgtcgagattactcatatgggtttt--tagATTGGAGGAGCAAGTGAGACAGAAGTTAGTGAAAAGAAAGATAGAGTAACGGATGCTCTAAATGCCACTAAAGCAGCCGTAGAGGAGGGTATTGTTCCAG

upper sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 12
lower sequence: AT3G23990.1 (Arabidopsis thaliana), 3'ss of exon 11
gtgaggttattgacctactgtatgtatttacgaatggtagattacatgttcttgttttatatcgtaattgtaataactgttacctgtggctctctgatatttcctgattttgtgcctatgtgtgcatcctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG
                                   | |||  | |||||| |  | || |       ||  ||| |  |   ||||        ||  | |  ||  || |   | | ||     |    |   |||||||||||||| || ||||| ||||||||||||||||| || ||||||||||||||  ||||||| |||||||| || ||||||||||| ||| ||||||
-----------------------------------gttag--tccatgttataatgttttgggagtcttagaatcatagcagcctgg------ttgtaagtgtcttgttata-acttctggagctaattgtgtttagATTGGAGGAGCAAGTGAAGCTGAAGTTGGTGAGAAGAAAGACAGAGTGACAGATGCTTTGAATGCCACTAAAGCAGCAGTTGAAGAGGGTATTTTACCAG

upper sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 12
lower sequence: Vv05s0051g00340.t01 (Vitis vinifera), 3'ss of exon 13
------gtgaggttattgacctactgtatg--tatttacgaatggt-agattacatgttcttgtttta-tatcgtaattgtaataactgttacctgtggctctctgatatttcctgattttgtgcctatgtgtgcatcctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG
       | |  |||   | |  |   ||   | | || |  || | ||  |  |   ||  |   || | |  |  |  | | |    |      ||       ||||| |    |  | |||   |    ||| ||| ||   |||| |||||||| || ||||| |||||| |||||||||| ||||| || |||||||| || ||||||||||| || ||||| ||||| || ||||||||||
gtctgtatcaatttacaaatccccaacattactgtctaggcttgttgaggctctaaactcaggagctactgtactggtactcagattcatggggaatgttatctagatatatataaaaatggtg--gaaaattgcttccctttgcagATAGGAGGAGCTAGTGAAGCTGAAGTTAGTGAGAAGAAAGATAGGGTTACAGATGCTCTAAATGCTACTAAGGCAGCTGTAGAAGAAGGAATTGTACCAG

upper sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 12
lower sequence: PP1S44_339V6.1 (Physcomitrella patens), 3'ss of exon 12
gtgaggttattgacctactgtatgtatttacgaatggtagattacat-gttcttg--ttttatatcgtaattgtaataactgttacctgtggctctctg-atatttcctgattttgtgcctatgtgtgcatcctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG
||  |  || |  | ||| |    |  ||   |||     |||||||  || |||  | || |     |  |  |||         |||      | |  | ||    |||  |   ||  ||      || |  |  ||||| |||||| | || ||||  |||||   |||||| || ||| | || || |||||  ||||||| |||||||| ||||| ||||||||||||||||| |
gtctgcataatatcatacggccccttcttttaaataaagaattacattatttttggatattgtccttcatcttcaatcgtgtagttctgaaaaaatgtacaaatagagtgaagtgaggctaatcctacaatgcgattgtagATCGGAGGAACTAGTGAAGTGGAAGTCAATGAGAAAAAAGATCGTGTAACGGATGCCTTGAATGCCACTAAAGCAGCTGTGGAAGAGGGCATTGTACCCG

upper sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 12
lower sequence: PP1S52_245V6.1 (Physcomitrella patens), 3'ss of exon 13
gtgaggttattgacctactgtatgtatttacgaatggtagattacatgttcttgttttatatcgtaattgtaataactgttacctgtggctctctgatatttcctgattttgtgcctatgtgtgcatcctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG
                   ||| | ||  |      |    ||    ||||  || |   ||| |  | |  |||     | ||||    |  | ||| | |  ||  ||||   || | | ||  || ||||  |||| |||||||| |||||||  || ||  |||| ||||| ||| | || || ||||||||||||||||||||||||||||| || ||||| |||||||| |
-------------------gtaaggatccatctgaagcctgttcatcgttccagtctatgatcat--tggagatatggcattcctgcaatta-ccgatgtgt--tgggtttgaaact-tatatgattcatttc--agATCGGAGGAGCAAGCGAAGTTGAGGTGAGTGAAAAGAAAGATCGTGTTACTGATGCACTGAATGCTACTAAAGCTGCTGTCGAGGAGGGGATTGTACCTG

upper sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 12
lower sequence: PP1S378_9V6.2 (Physcomitrella patens), 3'ss of exon 12
gtgaggttattgacctactgtatgtattta---cgaatggtagattacatgttcttgttttatatcgtaattgtaataactgtt--acctgtggctctctgatatttcctgattttgtgcctatgtgtgcatcctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG
||       |   |||| | ||  || ||    ||  ||  | || | || |  | |     ||   || |     || |  ||  | |  |     |   ||  |   ||||||| |  || | | ||       |   ||||||||||||| || ||||  || ||| |||||||||| ||  | || || |||||| ||||||| || ||||| |||||||| ||||||||||| || |
gtatatcagtcatcctaatttaaatagttgtctcgtttgaca-atgaaatttattggcacactacaatagtgcctgtagcatttcaagccttaaactttaaattgtaagtgattttatttctttctttgtgc----ttacagATTGGAGGAGCTAGTGAAGTTGAGGTTAGTGAGAAGAAAGACCGTGTTACTGATGCATTGAATGCCACCAAAGCCGCTGTTGAGGAGGGCATTGTTCCTG

upper sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 12
lower sequence: EFJ32351 (Selaginella moellendorffii), 3'ss of exon 11
gtgaggttattgacctactgtatgtatttacgaatggtagattacatgttcttgttttatatcgtaattgtaataactgttacctgtggctctctgatatttcctgattttgtgcctatgtgtgcatcctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG
                                                               |||  |  |  ||    |   ||||||       | |||  |  | ||  ||    | | |          |||||||||||||  || ||||| ||||| ||||| ||||||||| | ||||| ||||| ||||||||||| || ||||| || || ||||| || || ||||
---------------------------------------------------------------gtatgtacaccaaagact-tttgtggcagc---gtttttattattgtttcgcgcgcgagcg----------tagATTGGAGGAGGTAGTGAAGCGGAAGTCGGTGAAAAGAAGGATCGGGTGACCGATGCGCTGAATGCTACAAAGGCTGCAGTGGAGGAGGGAATCGTGCCAG

upper sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 12
lower sequence: EFJ20894 (Selaginella moellendorffii), 3'ss of exon 11
gtgaggttattgacctactgtatgtatttacgaatggtagattacatgttcttgttttatatcgtaattgtaataactgttacctgtggctctctgatatttcctgattttgtgcctatgtgtgcatcctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG
                                                               |||  |     ||    |   ||||||       | |||  |  | ||  ||    | |||          |||||||||||||  || ||||| |||||  |||| ||||||||| | ||||| ||||| ||||||||||| || ||||| || || ||||| || || ||||
---------------------------------------------------------------gtacgtacgccaaagact-tttgtggcagc---gtttttattattgtttcgcgcgcgagtg----------tagATTGGAGGAGGTAGTGAAGCGGAAGTCAGTGAAAAGAAGGATCGGGTGACGGATGCGCTGAATGCTACAAAGGCTGCAGTGGAGGAGGGAATCGTGCCAG

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|31349659|gb|CD434016.1|CD434016
EST:     AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAG                         ATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|91875568|gb|EB405525.1|EB405525
EST:     AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAG                         ATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|71425566|gb|DR806758.1|DR806758
EST:     AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAG                         ATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|78078493|gb|DV506906.1|DV506906
EST:     AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAG                         ATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|32929020|gb|CF033832.1|CF033832
EST:     AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAG                         ATTGGAGGAGCCAGCGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|18450761|gb|BM429039.1|BM429039
EST:     AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGCTCTGAAG                         ATTGGAGGAGCCAGCGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|87152342|gb|DY397131.1|DY397131
EST:     AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAG                         ATTGGAGGAGCCAGCGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|32944170|gb|CF048989.1|CF048989
EST:     AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAG                         ATTGGNGAAGCCAGCGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|32932633|gb|CF037445.1|CF037445
EST:     AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAG                         ATTGGAGGAGCCAGCGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|32858330|gb|CD998011.1|CD998011
EST:     AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAG                         ATTGGAGGAGCCAGCGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACG
genomic: AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|32931719|gb|CF036531.1|CF036531
EST:     AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAG                         ATTGGAGGAGCCAGCGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|6056565|gb|AW090970.1|AW090970
EST:     AGCTCCAGGAACGGNTGGCAAAGCTCTCTGGAGGTGNTGCTGNTCTGAAG                         ATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|21432198|gb|BQ547688.1|BQ547688
EST:     AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAG                         ATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|32857688|gb|CD997369.1|CD997369
EST:     AGCTCCAGGAACGGTTGGCAAAGCCCTCTGGAGGTGTTGCTGTTCTGAAG                         ATTGGAGGAGCCAGCGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|33103385|gb|CF063345.1|CF063345
EST:     AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAG                         ATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA
EST: gi|22489874|gb|BU049797.1|BU049797
EST:     AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAG                         ATTGGAGGAGCCAGCGAAGCTGAAGTTGGTGAGAAGAAGGATAGAGTGACA
genomic: AGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACA

RNA-Seq data


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

 atgs   Truncated intron sequence

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


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 707

ATTAGATCAGCAGTTGAGAACAGCACTTCAGATTATGACAAGGAAAAGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 285

ATTAGATCAGCAGTTGAGAACAGCACTTCAGATTATGACAAGGAAAAGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 232

ATTAGATCAGCAGTTGAGAACAGCACTTCAGATTATGACAAGGAAAAGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 626

ATTAGATCAGCAGTTGAGAACAGCACTTCAGATTATGACAAGGAAAAGCTCCAGGAACGGTTGGCAAAGCTCTCTGGAGGTGTTGCTGTTCTGAAGgtgaggttat ... cctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctgtggctctctgatatttcctgattttgtgcctatgtgtgcatcctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG
                   tcctgat  putative branch site (score: 626)
                                          catcctttcct  putative PPT
            tgatattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaggttattgacctactgtatgtatttacgaatggtagattacatgttcttgttttatatcgtaattgtaataactgttacctgtggctctctgatatttcctgattttgtgcctatgtgtgcatcctttcctagATTGGAGGAGCCAGCGAAGCAGAAGTTGGTGAGAAGAAGGATAGAGTGACAGATGCACTGAATGCTACTAAAGCTGCTGTTGAAGAGGGCATTGTACCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG