Sequence
atgc intronic sequence ATGC exonic sequencegtttgaatccatggattgtaatataattatacttaatatttttttcgactttcaaaggaaagcttcttgtctacagaatttcataaggtctacaactgatatggactgagaactgctaatcagaatgtatcatatatttcacagGCATTCAATGGAAAAAAGTGGGAGAAGTTCAATAGTGAGAAGGTGGCATCTCTTGCATATGCTCAAATTTAAGGAAAAACTGCTCTTACTGCTCATTTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0239g00110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G459746_T01 (Zea mays), 3'ss of exon 13
-----------gtttgaatccatggattgtaatataattatacttaatatttttttcgactttcaaaggaaagcttcttgtctacagaattt---cataaggtctacaactgatatggactgagaactgctaatcagaat-gtatcat-atatttcacagGCATTCAATGGAAAAAAGTGGGAGAAGTTCAATAGTGAGAAGGTGGCATCTCTTGCATATGCTCAAATTTAAGGAAAAACTGCTCTTACTGCTCATTTCC
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gtcagaaaattattccaattgacgaagtgctactgcattg-atgtaaagttgtaaactagcctttggtcaacttatatgccttgccaaatttgtactttgataaaatatccggcttgaacatcgacgtgctatcctgagccattttgtcatctttttcagACTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCACTTGCTTATGCTAGAATCCAAGGGAAAACAGCTCTGATTGCTCATTTCC
upper sequence: Vv00s0239g00110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 3
-------------gtttgaatccatgg-attgta--atataattatacttaatatttttttcgactttcaaaggaaagcttcttgtctacagaatttcataaggtctacaactg--atatggac-tgagaactgctaatcagaatgtatcatatatttcacagGCATTCAATGGAAAAAAGTGGGAGAAGTTCAATAGTGAGAAGGTGGCATCTCTTGCATATGCTCAAATTTAAGGAAAAACTGCTCTTACTGCTCATTTCC
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gtgagaattattcaattaaataagtgctactgtatcgtgcagttatggctattttgacttttgatcaacttat-atggcttgccaaatttgtacttcgataaaatatccatctggaacatggatgtgtgctatcctgagct-attttttcat-cgtttttcagAGTTTTAATGGTAAAAAGTGGGAGAAGTTTAACAGTGAGAAGGTGGCATCACTTGCTTATGCCAGAATCCAAGGGAAAACAGCCCTGATTGCTCATTTCC
upper sequence: Vv00s0239g00110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G156956_T01 (Zea mays), 3'ss of exon 12
gtttgaatccatggattgtaatataattatacttaatat-ttttttcgactttcaaaggaaagcttcttgtctacagaatttcataaggtctacaactgatatggactgagaactgctaatcagaatgtatcatatatttcacagGCATTCAATGGAAAAAAGTGGGAGAAGTTCAATAGTGAGAAGGTGGCATCTCTTGCATATGCTCAAATTTAAGGAAAAACTGCTCTTACTGCTCATTTCC
||| || | | | | || | || || || | || || || | || | || || | | | | | | | | | | ||| ||||||| || || || ||||||||||||||||||||||| |||||||| ||||| || || ||| | |||| | ||| | | |||||||||||
-----------------------------------gtatgttcctgtgcccataccttgatacctgacagtaagggaaaatatatctagtttaactccagaattggatgtgagaagattaactatagctgatacttctgt-gcagACATTCAACGGCAAGAAATGGGAGAAGTTCAATAGTGAGAAAGTGGCATCACTTGCGTACGCCAGAATCCAGGGAAGGAACGCTTTGATTGCTCATTTCC
upper sequence: Vv00s0239g00110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G451716_T01 (Zea mays), 3'ss of exon 13
gtttgaatccatggattgtaatataattatacttaatatttttttcgactttcaaagg-aaagcttcttgtctacaga-atttcataaggtctacaactgatatggac-tgagaactgctaatcagaatgtatcatatatttcacagGCATTCAATGGAAAAAAGTGGGAGAAGTTCAATAGTGAGAAGGTGGCATCTCTTGCATATGCTCAAATTTAAGGAAAAACTGCTCTTACTGCTCATTTCC
|| | | || | ||| |||| | | | ||||||| || || || | | | | || || || ||| | | | | ||| |||| |||| |||| ||||||||| ||||| |||||||| ||||| || ||||| |||||| ||| |||||||| | ||||| |||||||||||
-------------------------------------------aaagattatgaaggctaaatcttcgaatgcatgcacgcttcataaa---tagaaatggaaggagtataaaaatgaagaactttaacacatc-tgtctcttgcagACATTTCATGGGAAAAGGTGGGAGAAATTCAACAGTGAGAAAGTGGCCTCACTTGCTTATGCTAGAATCCAAGGAAAATCAGCTCTAGTTGCTCATTTCC
upper sequence: Vv00s0239g00110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ28199 (Selaginella moellendorffii), 3'ss of exon 12
gtttgaatccatggattgtaatataattatacttaatatttttttcgactttcaaaggaaagcttcttgtctacagaatttcataaggtctacaactgatatggactgagaactgctaatcagaatgtatcatatatttcacagGCATTCAATGGAAAAAAGTGGGAGAAGTTCAATAGTGAGAAGGTGGCATCTCTTGCATATGCTCAAATTTAAGGAAAAACTGCTCTTACTGCTCATTTCC
|| | || | | | || | ||| || || | || | |||| | ||||||||||| ||||||||||||||||| || |||||||| || ||||| || || |||| ||| |||| || ||| || || |||||||
---------------------------------------------------------------------------------------gtttgacaccgttgttttcttcg---tgcgcatt----ctcattctcgatcttacagACCTTCAATGGAAAGAAGTGGGAGAAGTTCAACAGCGAGAAGGTTGCTTCTCTGGCTTACGCTCGAATACAAGGCAAGGTTGCCCTCGTCGCACATTTCC
upper sequence: Vv00s0239g00110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ16044 (Selaginella moellendorffii), 3'ss of exon 8
gtttgaatccatggattgtaatataattatacttaatatttttttcgactttcaaaggaaagcttcttgtctacagaatttcataaggtctacaactgatatggactgagaactgctaatcagaatgtatcatatatttcacagGCATTCAATGGAAAAAAGTGGGAGAAGTTCAATAGTGAGAAGGTGGCATCTCTTGCATATGCTCAAATTTAAGGAAAAACTGCTCTTACTGCTCATTTCC
| | ||| | | | | || | | | || ||| | |||| | || || | |||||||| | |||||||| || || ||||||||||| || || |||||||||||||| || || || || | || |||| || | || || | || || ||||
-------------------------------------------------------------gttctctgtgaa-aaagagagaggagattttcctacgacttggttctaaaacttgtcat---------tctttgttttcacagACGTTCAATGGCAAGAAATGGGAGAAGTTTAACAGCGAGAAGGTGGCATCGCTCGCGTACGCGCGGATCCAAGGCAAGGCCGCGCTGATCGCGCACTTCC
upper sequence: Vv00s0239g00110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ29693 (Selaginella moellendorffii), 3'ss of exon 10
gtttgaatccatggattgtaatataattatacttaatatttttttcgactttcaaaggaaagcttcttgtctacagaatttcataaggtctacaactgatatggactgagaactgctaatcagaatgtatcatatatttcacagGCATTCAATGGAAAAAAGTGGGAGAAGTTCAATAGTGAGAAGGTGGCATCTCTTGCATATGCTCAAATTTAAGGAAAAACTGCTCTTACTGCTCATTTCC
|| | || | | | || | ||| || || | || | |||| | ||||||||||| ||||||||||| ||||| || |||||||| || ||||| || || |||| ||| |||| || ||| || || |||||||
---------------------------------------------------------------------------------------gtttgacaccgttgttttcttcg---tgcgcatt----ctcattctcgatcttacagACCTTCAATGGAAAGAAGTGGGAGAAATTCAACAGCGAGAAGGTTGCTTCTCTGGCTTACGCTCGAATACAAGGCAAGGTTGCCCTCGTCGCACATTTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctacaactgatatggactgagaactgctaatcagaatgtatcatatatttcacagGCATTCAATGGAAAAAAGTGGGAGAAGTTCAATAGTGAGAAGGTGGCATCTCTTGCATATGCTCAAATTTAAGGAAAAACTGCTCTTACTGCTCATTTCC
tgctaat putative branch site (score: 2)
aatgtatcatatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgaatccatggattgtaatataattatacttaatatttttttcgactttcaaaggaaagcttcttgtctacagaatttcataaggtctacaactgatatggactgagaactgctaatcagaatgtatcatatatttcacagGCATTCAATGGAAAAAAGTGGGAGAAGTTCAATAGTGAGAAGGTGGCATCTCTTGCATATGCTCAAATTTAAGGAAAAACTGCTCTTACTGCTCATTTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA