Sequence
atgc intronic sequence ATGC exonic sequence...ttaagctgtctttggagaaattagatatggatatttttgccctcttacaggtttaaatattgaatgctctttacatttgacctcacttgttttcatgcagGGACGGTTGTTTATGTCTGCAAGAATAATTGGGTTCCATGCAAATTTATTTGGCCATAAAACAAAGTTCTTTTTCCTCTGGGAGGACATAGATGACATTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0194g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G00850.1 (Glycine max), 3'ss of exon 7
-----------ttaagctgtctttggagaaattagatatggatatttttgccctcttacaggtttaaat----attgaatgctctt-tacatttgacctcacttgttttcatgcagGGACGGTTGTTTATGTCTGCAAGAATAATTGGGTTCCATGCAAATTTATTTGGCCATAAAACAAAGTTCTTTTTCCTCTGGGAGGACATAGATGACATTC
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gtgtggttggtctgtgatgtggttttaaagccacggtcaagttctattttgattttaactggctcatgtttcttttgtattatctcattaagttgctgccaattgttcttg-gtagGGCCGCCTATTTGTTTCAGCAAGAATAATTGGATTTCATGCAAATTTGTTTGGACATAAGACAAAATTCTTTTTCCTTTGGGAGGACATTGAGGACGTCC
upper sequence: Vv00s0194g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G39920.1 (Glycine max), 3'ss of exon 6
--------------ttaagctgtctttggagaaattagatatggatatttttgccct--cttacaggtttaaatattgaatgctctt-tacatttgacctcacttgttttcatgcagGGACGGTTGTTTATGTCTGCAAGAATAATTGGGTTCCATGCAAATTTATTTGGCCATAAAACAAAGTTCTTTTTCCTCTGGGAGGACATAGATGACATTC
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gtgtggttggtctgttatgtggttttgaaagccatggtcaagtactattttgattttaactggctcatgtttcttttgtattttctcattaagttgctgccaattgttcttg-gtagGGCCGCCTATTTGTTTCAGCAAGAATTATTGGATTTCATGCAAATTTGTTTGGACACAAGACAAAATTCTTTTTGCTTTGGGAGGACATTGAAGACATCC
upper sequence: Vv00s0194g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G12790.1 (Glycine max), 3'ss of exon 9
------ttaagctgtctttgga----gaaattagatatggatatttttgccct----cttacaggt--ttaaatattgaatgctctttacatttgacctcacttgttttcatgcagGGACGGTTGTTTATGTCTGCAAGAATAATTGGGTTCCATGCAAATTTATTTGGCCATAAAACAAAGTTCTTTTTCCTCTGGGAGGACATAGATGACATTC
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gtgtggttattctgttatgtgatattgaaattcatggtcaattattctactttggtatttactggtacttgcttcttttagtatcatctcatcatattgtgaatatttgtctgcagGGCCGCCTATTTCTATCAGCAAGAATAATTGGATTTCATGCAAATTTGTTTGGAAATAAGACAAAATTCTTTTTTCTTTGGGAAGATATTGAAGACATTC
upper sequence: Vv00s0194g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G01830.1 (Glycine max), 3'ss of exon 5
------ttaagctgtctttgga----gaaattagatatggatatttttgccct----cttacaggtttaaa--tattgaatgctctttacatttgacctcacttgttttcatgcagGGACGGTTGTTTATGTCTGCAAGAATAATTGGGTTCCATGCAAATTTATTTGGCCATAAAACAAAGTTCTTTTTCCTCTGGGAGGACATAGATGACATTC
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gtgtggttattctgttatgtgatgttgaaattcatggtcaattattctactttggtttttactggtgcatgcttcttttagtatcttctcataaaattgtgaatatttctctgcagGGCCGCCTATTTCTATCAGCAAGAATAATTGGATTTCATGCAAATTTGTTTGGAAACAAGACAAAATTCTTTTTTCTTTGGGAAGATATTGAAGAAATTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacaggtttaaatattgaatgctctttacatttgacctcacttgttttcatgcagGGACGGTTGTTTATGTCTGCAAGAATAATTGGGTTCCATGCAAATTTATTTGGCCATAAAACAAAGTTCTTTTTCCTCTGGGAGGACATAGATGACATTC
acctcac putative branch site (score: 3)
cctcacttgttttc CT-rich tract
tttaaatattgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaagctgtctttggagaaattagatatggatatttttgccctcttacaggtttaaatattgaatgctctttacatttgacctcacttgttttcatgcagGGACGGTTGTTTATGTCTGCAAGAATAATTGGGTTCCATGCAAATTTATTTGGCCATAAAACAAAGTTCTTTTTCCTCTGGGAGGACATAGATGACATTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - -ggagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acctcac