Sequence
atgc intronic sequence ATGC exonic sequencegttattcttcctttttctttttctgatgttgtcttttttattcttagtgatagaaagtaaaagtgctgaagttttactagtgttattattatagGCACTTGTGGTCCTTGTACATGATATGGGTGCAAATTGGGAGCTTGTAAGTGATGCTATCAACAGCACTCTCCAATTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G018048_T01 (Zea mays), 3'ss of exon 2
gttattcttcctttttctttttctgatgttgtcttttttattcttagtgatagaaagtaaaagtgctgaagttttactagtgttattattatagGCACTTGTGGTCCTTGTACATGATATGGGTGCAAATTGGGAGCTTGTAAGTGATGCTATCAACAGCACTCTCCAATTCAAG
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----------gttcttttgggtttgaagttatatatttatttttgagt-------atgatttgtggtgatagctaaatatcttgaatatttcagGCACTTGTTGTCCTTGTCCATGATATGGGTCAAAACTGGGAACTAGTTAGTGACGCAATCAACAACATCGTGCAGTTCAAG
upper sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA08G46710.1 (Glycine max), 3'ss of exon 18
-------gttattcttcctttttctttttctga-tgttgtc-ttttttattcttagtgatagaaagtaa--aagtgctgaagttttactagtgttat----tattatagGCACTTGTGGTCCTTGTACATGATATGGGTGCAAATTGGGAGCTTGTAAGTGATGCTATCAACAGCACTCTCCAATTCAAG
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gttgtctgttgttcgatagttatctcaacttaactcttgtcatgttttggagtaaatatttgaacttagtgacttacagaaagttgttatctattatccaatgttgcagGCTCTTGTTGTCCTGGTGCATGATATGGGTCCAAACTGGGAGCTTGTTAGTGATGCTATCAACAGTACTATACAATTCAAG
upper sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA03G18730.1 (Glycine max), 3'ss of exon 6
-----------------------gttattcttcctttttctttttctgatgttgtcttttttattcttagtgatagaaagtaaaagtgctgaagttttactagtgttat------tattatagGCACTTGTGGTCCTTGTACATGATATGGGTGCAAATTGGGAGCTTGTAAGTGATGCTATCAACAGCACTCTCCAATTCAAG
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gttgtttggaattcatttgctttatcattttttctctgttattattgaattgaataaatattttacactttaaaatctatcaattgtgtaaagggcttaccattattctcctgcctgttgcagGCTCTTGTGGTGCTGGTGCATGATATGGGTCCAAACTGGGAGCTCGTAAGTGATGCTATCAATAGTGCTCTCCAAATCAAG
upper sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA16G14060.1 (Glycine max), 3'ss of exon 17
-------gttattc--ttcctttttctttttctgatgttgtctttt--------ttattcttagtgatagaaagtaaaagtgctgaagttttactagtgttat------tattatagGCACTTGTGGTCCTTGTACATGATATGGGTGCAAATTGGGAGCTTGTAAGTGATGCTATCAACAGCACTCTCCAATTCAAG
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gttgtttggaattcatttgctttatcattttttg-tgttattttttaataaatattttacactttaatatctatcaattgtgtaaaagacttaccattattctcctgcctgttgcagGCTCTTGTGGTCCTGGTGCATGATATGGGTCCAAACTGGGAGCTCATAAGTGATGCTATCAATAGTGCTCTTCAAATTAAG
upper sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA18G36660.1 (Glycine max), 3'ss of exon 15
gttattc-ttcctttttctttttctgatgttgtctttt---ttattcttagtgatagaaagtaaaagtgctgaagttttactag---------tgttat----tattatagGCACTTGTGGTCCTTGTACATGATATGGGTGCAAATTGGGAGCTTGTAAGTGATGCTATCAACAGCACTCTCCAATTCAAG
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gttgtttgttgtttgttagttatctcaacttaacttttatgttgttttttggagtaaatatttcaacttcatgacttgcataaactggttatctattatccaatgttgcagGCTCTTGTTGTCCTGGTGCATGATATGGGTCCGAACTGGGAGCTTGTTAATGATGCCATCAACAGTACTATACAATTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attcttagtgatagaaagtaaaagtgctgaagttttactagtgttattattatagGCACTTGTGGTCCTTGTACATGATATGGGTGCAAATTGGGAGCTTGTAAGTGATGCTATCAACAGCACTCTCCAATTCAAG
ttttactagtgttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttattcttcctttttctttttctgatgttgtcttttttattcttagtgatagaaagtaaaagtgctgaagttttactagtgttattattatagGCACTTGTGGTCCTTGTACATGATATGGGTGCAAATTGGGAGCTTGTAAGTGATGCTATCAACAGCACTCTCCAATTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT