Sequence
atgc intronic sequence ATGC exonic sequencegttatattccaaatctagttattatatattatttatattgtggtgtgccaaaaaccaatgcataagtagaggtttattagttgaaactctaattgttattgttatcttcatcctcatcctattctttctcaaggttgcttgttaatgatacttgtgtttttctttaaccatatgattagACCTGCTAATGTTCCTGAAGGTGCTCATGTTCAATGGGAAATTGAGCTTCTTGGTTTTGAGATGCCAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g01460.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os03g25140.1 (Oryza sativa), 3'ss of exon 12
gttatattccaaatctagttattatatattatttatattgtggtgtgccaaaaaccaatgcataagtagaggtttattagttgaaactctaattgttattgttatcttcatcctcatcctattctttctcaaggttgcttgttaatgatacttgtgtttttctttaaccatatgattagACCTGCTAATGTTCCTGAAGGTGCTCATGTTCAATGGGAAATTGAGCTTCTTGGTTTTGAGATGCCAAAG
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----------------------------------------------------------------------------------------------------gttgtatgtggctttacattagaatcttt-----tttcttgt-aatatagcgtgctgaataatctaatgattgcaacagGCCAGCGAATGTTCCTGAAGGAGCTCATGTTCAATGGGAAATTGAATTACTTGGATTTGAAATGCCCAAG
upper sequence: Vv08s0007g01460.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G117746_T01 (Zea mays), 3'ss of exon 12
gttatattccaaatctagttattatatattatttatattgtggtgtgccaaaaaccaatgcataagtagaggtttattagttgaaactctaattgttattgttatcttcatcctcatcctattctttctcaaggttgcttgttaatgatacttgtgtttttctttaaccatatgattagACCTGCTAATGTTCCTGAAGGTGCTCATGTTCAATGGGAAATTGAGCTTCTTGGTTTTGAGATGCCAAAG
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----------------------------------------------------------------------------------------------------gtcgtgccaaacattatttcagagtcccttattgtaatggggccttcagaataatatattgtggttgcaaca------gGCCAGCAAATGTTCCTGAAGGAGCTCATGTTCAGTGGGAAATTGAACTACTTGGATTCGAAATGCCCAAG
upper sequence: Vv08s0007g01460.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA03G16440.1 (Glycine max), 3'ss of exon 12
gttatattccaaat----ctagttattatatatt--atttatattgtggtgtgccaaaaaccaatgcataagtagaggtttattagttgaaactctaattgttattgttatcttcatcctcatcctattctttctcaaggttgcttgttaatgatacttgtgtttttctttaaccatatgattagACCTGCTAATGTTCCTGAAGGTGCTCATGTTCAATGGGAAATTGAGCTTCTTGGTTTTGAGATGCCAAAG
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gttgctgacgaaagtacaccttttactgtgtgtttaaccaataatttaggttttttgaagc--attttagtgcgggcaattgccaattgaa--tatggtttctatctgaagatccattgtcattctgttctattccta---tgctttattgccatactt----cctccttt-----tatgactagGCCATTAAATGTCCCTGAGGGTGCTCATATTCAGTGGGAAATTGAGCTTCTAGGTTTTGAAACGCCAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctcaaggttgcttgttaatgatacttgtgtttttctttaaccatatgattagACCTGCTAATGTTCCTGAAGGTGCTCATGTTCAATGGGAAATTGAGCTTCTTGGTTTTGAGATGCCAAAG
ctttaac putative branch site (score: 3)
tttttctttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttatattccaaatctagttattatatattatttatattgtggtgtgccaaaaaccaatgcataagtagaggtttattagttgaaactctaattgttattgttatcttcatcctcatcctattctttctcaaggttgcttgttaatgatacttgtgtttttctttaaccatatgattagACCTGCTAATGTTCCTGAAGGTGCTCATGTTCAATGGGAAATTGAGCTTCTTGGTTTTGAGATGCCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG