Sequence
atgc intronic sequence ATGC exonic sequence...tgttaatgttcaataggtacacaatggataatttactggtttcactcctcatttcctttctaaaactacttttatttataatctagttggttttccacagGCTCATCAGAATGTTTTCCGCCAACTGGTTGATTTGATAGGAATTACATCCATCATGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02770.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G29710.1 (Glycine max), 3'ss of exon 6
-tgttaatgttcaataggtacacaatggata-atttactggt-ttcactcctcatttcctttctaaaactacttttatttataatctagttggttttccacagGCTCATCAGAATGTTTTCCGCCAACTGGTTGATTTGATAGGAATTACATCCATCATGGAG
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acctttatgttaaacagtttt-tagtctttacaacggttggtgtgcatgttgcatagtctctgtgaaat--ccttcattcacaattcagcataatttctgcagGCCCATCAGAATGTTTTTCGCCAACTGGTTGATTTGATAGGAATTACATCCATTATGGAG
upper sequence: Vv06s0004g02770.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G40050.1 (Glycine max), 3'ss of exon 6
tgttaatgttcaataggtacacaatggata-atttactggt-ttcactcctcatttcctttctaaaactacttttatttataatctagttggttttccacagGCTCATCAGAATGTTTTCCGCCAACTGGTTGATTTGATAGGAATTACATCCATCATGGAG
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-ctttatattaaacagtttt-tagtctttacaatgattggtgtgcatgttgcatagtctctttgtgaaatccttcattcatgattcagcataatttctgcagGCCCATCAAAATGTTTTTCGCCAACTGGTTGATTTGATAGGAATTACATCCATTATGGAG
upper sequence: Vv06s0004g02770.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G20500.1 (Glycine max), 3'ss of exon 6
tgttaatgttcaataggta-cacaatggataatttactggtt-tcactcctcatttcctttctaaaacta-cttttatttataatctagttggttttccacagGCTCATCAGAATGTTTTCCGCCAACTGGTTGATTTGATAGGAATTACATCCATCATGGAG
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-tttgaag--cagtttgtagtctattttacaactaagaatttgtgatatcctattctccttgtgatatcatctttcattcattcttcagcataatttctgcagGCCCATCAGCATGTTTTTCGTCAACTGGTAGATTTGATAGGCATTACATCCATTATGGAG
upper sequence: Vv06s0004g02770.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G08100.1 (Glycine max), 3'ss of exon 6
tgttaatgttcaataggta-cacaatggataatttactggtt-tcactcctcatttcctttctaaaactac-ttttatttataatctagttggttttccacagGCTCATCAGAATGTTTTCCGCCAACTGGTTGATTTGATAGGAATTACATCCATCATGGAG
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---tgcgaagcagtttgtagtctattttacaactaagaatctgtgatatcctattctccttgtgatatcacctttcattcattcttcagcatactttctgcagGCCCATCAGCATGTTTTTCGTCAACTGGTAGATTTGATAGGCATTACATCCATTATGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctcatttcctttctaaaactacttttatttataatctagttggttttccacagGCTCATCAGAATGTTTTCCGCCAACTGGTTGATTTGATAGGAATTACATCCATCATGGAG
ttctaaa putative branch site (score: 2)
ttttccac putative PPT
tttctaaaactacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgttaatgttcaataggtacacaatggataatttactggtttcactcctcatttcctttctaaaactacttttatttataatctagttggttttccacagGCTCATCAGAATGTTTTCCGCCAACTGGTTGATTTGATAGGAATTACATCCATCATGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - gtacaca
- - - - - - - - - - - - - - - - ttactgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaacta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tagttgg