Sequence
atgc intronic sequence ATGC exonic sequence...gttccctttcgtccgtttagctttaatttaattgaaaataaacctgttaaattagttaatgaattcttgaatgatctggacttttacactctatttgcagGAATTTTGCCATGCACAATATTGATACCTGGTCTATTTTTCATACCAGAATCTCCTCGTTGGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g01860.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G160504_T01 (Zea mays), 3'ss of exon 6
gttccctttcgtccgtttagctttaatttaattgaaaataaacctgt-taaattagttaatgaattcttgaat--gatctggacttttacact-ctatttgcagGAATTTTGCCATGCACAATATTGATACCTGGTCTATTTTTCATACCAGAATCTCCTCGTTGGCTG
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-atgactataatc---ttagaaataactagctaggaagatattaaatgcatactagtatacgtgtcattatttcttatctaaatgtctggattgccaattatagGAGCCTTGCCCTGCACAATGTTGATTCCTGGACTATTCTTCATTCCAGAATCTCCCAGATGGCTG
upper sequence: Vv04s0023g01860.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA16G25310.1 (Glycine max), 3'ss of exon 7
--gttccctttcgtccgtttagctttaatttaattgaaaataaacctgttaaattagttaatgaattcttg--aatgatctggacttttacactctatttgcagGAATTTTGCCATGCACAATATTGATACCTGGTCTATTTTTCATACCAGAATCTCCTCGTTGGCTG
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aaataatggtttgatctttcaaaacc--ttgtgtgtagagcatatcagt--actcagtttctgcaacctaagtaataacaataactattttatgtttgctgcagGAATTTTGCCTTGTACAGTATTAATACCTGGATTATTTTTCATACCTGAATCCCCCAGATGGTTG
upper sequence: Vv04s0023g01860.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA02G06280.1 (Glycine max), 3'ss of exon 7
gttccctttcgtccgtttagctttaatttaattgaaaata-aacctgtta--aattagttaatgaattcttg--aatgatc-tggac-ttttacactctatttgcagGAATTTTGCCATGCACAATATTGATACCTGGTCTATTTTTCATACCAGAATCTCCTCGTTGGCTG
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----ataatggtttgat--attttaaaacaataatgcgtagagcatatcattactctgtttctgcaacctaaataataacaataaatattttatgttctgct-gcagGAATTTTGCCCTGTACAGTATTAATACCTGGATTATTTTTCATACCTGAATCCCCCAGATGGTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttaaattagttaatgaattcttgaatgatctggacttttacactctatttgcagGAATTTTGCCATGCACAATATTGATACCTGGTCTATTTTTCATACCAGAATCTCCTCGTTGGCTG
agttaat putative branch site (score: 4)
ctctattt putative PPT
attagttaatgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttccctttcgtccgtttagctttaatttaattgaaaataaacctgttaaattagttaatgaattcttgaatgatctggacttttacactctatttgcagGAATTTTGCCATGCACAATATTGATACCTGGTCTATTTTTCATACCAGAATCTCCTCGTTGGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- -ccctttc
- - - - - - - - - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - cctgtta