Sequence
atgc intronic sequence ATGC exonic sequence...taaaatgattatgtaatgcaaattgcttttgaagagtggtttgccctttgataccttctttggttgtgacatcaaattgccaatttttaaacacttgcagGTTTGGCTGGTTTGTCTACTGCAAAATATTTGGCAGATGCAGGTCACAAGCCTATATTGTTGGAAGCAAGAGATGTTTTAGGTGGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G410515_T01 (Zea mays), 3'ss of exon 3
-----------------taaaatgattatgta-atgcaaattgcttttgaagagtggtttgccctttgataccttctttggttgtgacatcaaattgccaatttttaa----acacttgcagGTTTGGCTGGTTTGTCTACTGCAAAATATTTGGCAGATGCAGGTCACAAGCCTATATTGTTGGAAGCAAGAGATGTTTTAGGTGGAAAG
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gtctgacataattcacgattaatgtttgcacatatgttatttttctttgta-agtggg--gaacttcaagggaatctttaattg-gttggtagttttatagtttgtaatgttacttttgcagGATTGGCTGGTCTATCAACAGCGAAGTATCTGGCAGATGCTGGACATAAACCCATATTGCTTGAGGCAAGAGATGTTTTGGGTGGAAAG
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G36810.1 (Glycine max), 3'ss of exon 2
taaaatgattatgtaatgcaaattgcttttgaagagtgg--tttgccctttgataccttctttggttgtgacatcaaattgccaatttttaaacacttgcagGTTTGGCTGGTTTGTCTACTGCAAAATATTTGGCAGATGCAGGTCACAAGCCTATATTGTTGGAAGCAAGAGATGTTTTAGGTGGAAAG
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catgttggatatttaaagacaaaaaaatttgtaaactaatctttgcacattagttttggcctctctgcc--tattggattgatgcatgtttcattattgcagGATTGGCTGGTTTATCAACTGCAAAATATTTGGCTGATGCTGGGCATAAACCTATATTGCTGGAAGCAAGAGACGTTCTAGGTGGAAAG
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G00720.1 (Glycine max), 3'ss of exon 2
taaaatgattatgtaatgcaaattgcttttgaagagtggtttgccctttgataccttctttggt---tgtgac-atcaaattg--ccaatttttaaacacttgcagGTTTGGCTGGTTTGTCTACTGCAAAATATTTGGCAGATGCAGGTCACAAGCCTATATTGTTGGAAGCAAGAGATGTTTTAGGTGGAAAG
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----accctgatatcatgttggata--tttaaagacaaactaatctttgcacattagttttggcctctctgtctattggattgatgcatgtttcaaattatcgcagGATTGGCTGGTTTATCAACTGCAAAATATTTGGCTGATGCTGGGCATAAACCTATATTGCTGGAAGCAAGAGACGTTCTAGGTGGAAAG
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G14210.2 (Arabidopsis thaliana), 3'ss of exon 3
taaaatgattatgtaatgcaaatt--gcttttgaagagtggtttgccctttgataccttctttggttgtgacatcaaattgcc--aatttttaaacacttgcagGTTTGGCTGGTTTGTCTACTGCAAAATATTTGGCAGATGCAGGTCACAAGCCTATATTGTTGGAAGCAAGAGATGTTTTAGGTGGAAAG
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--------gtatgtc-tacaacttcatttcttactgctttgtttgggatctgatggaattaatgttcatgtgatgaagttcttttggctctcaaataattgcagGATTGGCTGGATTGTCAACTGCAAAGTACCTGGCTGATGCAGGCCACAAACCTCTGTTGCTTGAAGCAAGAGATGTTCTTGGTGGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttgataccttctttggttgtgacatcaaattgccaatttttaaacacttgcagGTTTGGCTGGTTTGTCTACTGCAAAATATTTGGCAGATGCAGGTCACAAGCCTATATTGTTGGAAGCAAGAGATGTTTTAGGTGGAAAG
ctttgat putative branch site (score: 5)
aatttttaaacactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaaatgattatgtaatgcaaattgcttttgaagagtggtttgccctttgataccttctttggttgtgacatcaaattgccaatttttaaacacttgcagGTTTGGCTGGTTTGTCTACTGCAAAATATTTGGCAGATGCAGGTCACAAGCCTATATTGTTGGAAGCAAGAGATGTTTTAGGTGGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
-aaaatga
- - - - - - - aatgcaa
- - - - - - - - - - - - - - - - - - - - -tgccctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atcaaat