Sequence
atgc intronic sequence ATGC exonic sequencegtatgttcattcttttgtgtgactgctactttcgaatcaacatgaacatctcatctcatatgatttgttttctaaactttggttgttgtttgctcttgtggttaaataattatcacaaccataatcaatttaattacattgtggttcagAGCTTGCATGGATATGGTTTCAATGATCACATGGAAGGGATCCCCCCTTACTTTGTACGCAGGTGGGCACCTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g08720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G041613_T02 (Zea mays), 3'ss of exon 2
gtatgttcattcttttgtgtgactgctactttcgaatcaacatgaacatctcatctcatatgatttgttttctaaactttggttgttgtttgctctt-gtggttaaataattatcacaaccataatcaatttaattacattgtggttcagAGCTTGCATGGATATGGTTTCAATGATCACATGGAAGGGATCCCCCCTTACTTTGTACGCAGGTGGGCACCTAAG
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-------------------------------gtaggtaatcactattgtttttgctgatttagttcttattctt--tcttaatagatcactgttctttgaaaatccactactctcattgtcatatttatgttacttg-gtgttgatgcagAAATTGCATGGTTATGGTTTCAATGATAACATGGAAGATCCACCTCCCTTTTTTGTACGGAGATGGGCTCCCACG
upper sequence: Vv18s0001g08720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G05020.1 (Glycine max), 3'ss of exon 2
gtatgttcattcttttgtgtgactgctactttcgaatcaacatgaacatctcatctcatatgatttgttttctaaactttggttgttgtttgctcttgtggttaaataattatcacaaccataatcaatttaattacattgtggttcagAGCTTGCATGGATATGGTTTCAATGATCACATGGAAGGGATCCCCCCTTACTTTGTACGCAGGTGGGCACCTAAG
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gtatgtctttcttaacttgaaatttgttcggatgatttgttcttaagaa-tgattcagaattacta--tctttaagctatcttctttggttgtgaagttggattggaagcaatattgttgatccttttataagtcttgttttcttacagGGTTCCCATGGTTCTGGTTCCAACAATAAAACAGAGAGCGTTGATCCTTATTTTGTACGCAGGTGGGCACCTAAG
upper sequence: Vv18s0001g08720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G05100.1 (Glycine max), 3'ss of exon 2
gtatgttcattcttttgtgtgactgctactttcgaatcaacatgaacatctcatctcat---------atgatttgttttctaaactttggttgttgtttgctcttgtggttaaataattatcacaaccata------atcaatttaa---ttacattgtggttcagAGCTTGCATGGATATGGTTTCAATGATCACATGGAAGGGATCCCCCCTTACTTTGTACGCAGGTGGGCACCTAAG
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gtatgtctttcttaacttgaatttttttcggttgatttgttcttaatatttgttcacattgggtaataatgattcaatagttactatctttaagctatcttctttggttgtaaagttgtattggaagcaatattgttgatccttttagaagttttgttttgctacagGGTTCCCATGGTTCTGGTTCCAACAATAAAACAGAGAGCGTTGATCCTTATTTTGTACGCAGGTGGGCACCTAAG
upper sequence: Vv18s0001g08720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G59520.3 (Arabidopsis thaliana), 3'ss of exon 2
gtatgttcattcttttgtgtgactgctactttcgaatcaacatgaacatctcatctcatatgatttgttttctaaactttggttgttgtttgctcttgtggttaaataattatcacaaccataatcaatttaattacattgtggttcagAGCTTGCATGGATATGGTTTCAATGATCACATGGAAGGGATCCCCCCTTACTTTGTACGCAGGTGGGCACCTAAG
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---------------------------------------gtatgtaaagcttggacctttttctctcagtcgaaaacttagaac----tttgttatcatccttc-----ttgttaatgttgttgagtgttttgttgcttt-tg--ccagAGCTGTAAGTCATATGGTTTGACTGAAAATGAGGATGCACCAGCTCCTTACTTTGTACGCAGGTGGGCACCTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgtggttaaataattatcacaaccataatcaatttaattacattgtggttcagAGCTTGCATGGATATGGTTTCAATGATCACATGGAAGGGATCCCCCCTTACTTTGTACGCAGGTGGGCACCTAAG
atttaat putative branch site (score: 4)
ttaaataattatcaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttcattcttttgtgtgactgctactttcgaatcaacatgaacatctcatctcatatgatttgttttctaaactttggttgttgtttgctcttgtggttaaataattatcacaaccataatcaatttaattacattgtggttcagAGCTTGCATGGATATGGTTTCAATGATCACATGGAAGGGATCCCCCCTTACTTTGTACGCAGGTGGGCACCTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG