Sequence
atgc intronic sequence ATGC exonic sequencegtaccaattaccaaagttgtagaaaattgttgtttgatgtatgatagatccgcgatttacatcatatcatggtcacagtgttgttcttgtgttaaaagatgttgaagaaactttttgaactttttcttttagATGGTTTCCTCAAACAGAACGATCCAGGGCTGTTGGAATTGCAATGGCTGGATTTCAGCTTGGCAGTGCAATTGGGCTTACGCTTGCTCCAATCCTCATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g06040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g63290.2 (Oryza sativa), 3'ss of exon 2
gtaccaattaccaaagttgtagaaaattgttgtttgatgtatgatagatccgcgatttacatcatatcatggtcacagtgttgttcttgtgttaaaagatgttgaagaaactttttgaactttttcttttagATGGTTTCCTCAAACAGAACGATCCAGGGCTGTTGGAATTGCAATGGCTGGATTTCAGCTTGGCAGTGCAATTGGGCTTACGCTTGCTCCAATCCTCATG
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-------------gtatttcttttgatcatttatcaatct-tcacgttttcgccaca-acctaatattatg-tgtttgcattgctgccctgtttaggaaact-----aattggttcaagtcttttcttatagGTGGTTTCCTCGCACAGAGCGATCAAGTGCTGTCGGGATTGCAATGGCTGGTTTTCAGCTTGGCAATACCATTGGTTTACTTCTTTCCCCTATCATCATG
upper sequence: Vv06s0004g06040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM5G856598_T02 (Zea mays), 3'ss of exon 2
gtaccaa--ttaccaaagttgtagaaaattgttgtttgatgtatgatagatccgcgatttacatcatatcatggtcacagtgttgtt-cttgtgttaaaagatgttgaagaaact-ttttgaactttttcttttagATGGTTTCCTCAAACAGAACGATCCAGGGCTGTTGGAATTGCAATGGCTGGATTTCAGCTTGGCAGTGCAATTGGGCTTACGCTTGCTCCAATCCTCATG
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gtatctacctttgtaacatcattccttttgactactccatctccaactttttccccacaaaaa-catattgttgtttggctgtgggaatttctgctaagatttatgtaagtgtttgcattggcccctttattacagGTGGTTTCCTCGCACAGAGAGATCTAGTGCTGTGGGTATTGCAATGGCTGGCTTTCAGCTTGGCAATACCATTGGGTTACTTCTTTCCCCAATTATCATG
upper sequence: Vv06s0004g06040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G38930.1 (Glycine max), 3'ss of exon 3
gtaccaattaccaaagttgtagaaaattgttgtttgatgtatgatagatccgcgatttacatcatatcatggtcacagtgttgttcttgtgttaaaagatgttgaagaaactttttgaactttttcttttagATGGTTTCCTCAAACAGAACGATCCAGGGCTGTTGGAATTGCAATGGCTGGATTTCAGCTTGGCAGTGCAATTGGGCTTACGCTTGCTCCAATCCTCATG
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-------------------------gtttttatttttt-tgagatgggctt-tgattatcactatggaattgctggagcgaaataggcttgata-----tttataatgactggttttggttcttcactttagATGGTTTCCACAAACCGAACGATCAAGGGCTGTAGGAATCTCGATGGCTGGATTTCAGCTTGGATGTGCAATAGGGCTCACGCTTTCTCCCATTCTCATG
upper sequence: Vv06s0004g06040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G36980.1 (Glycine max), 3'ss of exon 2
gtaccaattaccaaagttgtagaaaattgttgtttgatgtatgatagatccgcgatttacatcatatcatggtc--acagtgttgttcttgtgttaaaag----atgttgaagaaactt--tttgaactttttcttttagATGGTTTCCTCAAACAGAACGATCCAGGGCTGTTGGAATTGCAATGGCTGGATTTCAGCTTGGCAGTGCAATTGGGCTTACGCTTGCTCCAATCCTCATG
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---------------------------------------tgagatgggctt-tgattatcactttgttatgattttatggaattgctcaagcgaaataggcttgatatttataatgactggttttggttctttgctttagATGGTTTCCACAAACTGAACGATCAAGAGCTGTAGGAATCTCAATGGCTGGATTTATGCTTGGATGTGCAATAGGGCTCACACTTTCTCCCATTCTCATG
upper sequence: Vv06s0004g06040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G46980.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaccaattaccaaagttgtagaaaattgttgtttgatgtatgatagatccgcgatttacatcatatcatggtcacagtgttgttcttgtgttaaaagatgttgaagaaactttttgaactttttcttttagATGGTTTCCTCAAACAGAACGATCCAGGGCTGTTGGAATTGCAATGGCTGGATTTCAGCTTGGCAGTGCAATTGGGCTTACGCTTGCTCCAATCCTCATG
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gtagtgatgct-----ttgtattttattactgcttcaaatgtgataaa---gagacacaca-catgatctggttactgaagt-ttattgggttcttag----tgatagtacttttga----------tgtagATGGTTTCCCCCAACAGAACGTTCTAGGGCGGTTGGTATTGCAATGGCAGGGTTTCAGCTTGGGAATGTTGTAGGACTCATGTTGTCTCCTATTCTTATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgttgttcttgtgttaaaagatgttgaagaaactttttgaactttttcttttagATGGTTTCCTCAAACAGAACGATCCAGGGCTGTTGGAATTGCAATGGCTGGATTTCAGCTTGGCAGTGCAATTGGGCTTACGCTTGCTCCAATCCTCATG
ctttttctttt CT-rich tract
tttttgaacttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaccaattaccaaagttgtagaaaattgttgtttgatgtatgatagatccgcgatttacatcatatcatggtcacagtgttgttcttgtgttaaaagatgttgaagaaactttttgaactttttcttttagATGGTTTCCTCAAACAGAACGATCCAGGGCTGTTGGAATTGCAATGGCTGGATTTCAGCTTGGCAGTGCAATTGGGCTTACGCTTGCTCCAATCCTCATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT