Sequence
atgc intronic sequence ATGC exonic sequence...tcttgaaatttctgaaatctatcagaaaggtggttttcatcttggggtttaccaaatactgtatagaatctgcgtgggctaaatctattgaaatttgcagGTAATGTGGAAATGCGCTGGATTGATACATATTTCCCTTTCACCAACCCATCATTTGAACTTGAGATGTATTTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0027g01150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os12g34860.1 (Oryza sativa), 3'ss of exon 4
tcttgaaatttctgaaatctatcagaaaggtggttttcatcttggggtttaccaaatactgtataga-atctgcgtgggct-aaatctattgaaa----tttgcagGTAATGTGGAAATGCGCTGGATTGATACATATTTCCCTTTCACCAACCCATCATTTGAACTTGAGATGTATTTTCAG
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-------------gtaaactagtt-atagttagttctgtctttgtcaccaaagaaatttatcaaatatatatgcattggtttaaatataaagaaacatgtgtgcagGTGCTGTGGAAATGCGATGGGTTGACACATACTTCCCATTCACTAACCCGTCCTTTGAACTCGAGATATATTTTCAG
upper sequence: Vv19s0027g01150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G10060.1 (Glycine max), 3'ss of exon 4
tcttgaaatttctgaaatcta-tcagaaaggtg-gttttcatcttggggtttaccaaatactgtataga---atctgcgtgggctaaatctattgaaatttgcagGTAATGTGGAAATGCGCTGGATTGATACATATTTCCCTTTCACCAACCCATCATTTGAACTTGAGATGTATTTTCAG
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----tatacacaaggcgtctagttatgaacttgtgatattcctttgaagtcaaatataatttgcaaagctacgtacttataaattttcccttttactgttt-cagGTGCTGTGGAAATGCGCTGGGTGGATACTTATTTCCCATTTACTAATCCATCATTTGAACTTGAAATTTATTTCAAG
upper sequence: Vv19s0027g01150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G52890.1 (Glycine max), 3'ss of exon 6
-----tcttgaaatttctgaaatc---tatcagaaaggtggttttcatcttggggtttaccaaatactgtatagaatctgcgtgggctaaatctattgaaatttgcagGTAATGTGGAAATGCGCTGGATTGATACATATTTCCCTTTCACCAACCCATCATTTGAACTTGAGATGTATTTTCAG-----------------------
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agcctcctccatctccctctaaccaaacattatgtaaatgattttctttttttaaatagcc---ttctctgcgcattt---atagtttttcccttttgcgttt--cagGTGCTGTGGAAATGCGCTGGGTGGATACTTATTTCCCATTTACTAATCCATCGTTTGAACTTGAAATATATTTCAAGGCATGCTATGCATACTTATCTCT
upper sequence: Vv19s0027g01150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G58140.1 (Arabidopsis thaliana), 3'ss of exon 4
-----------------------------------------tcttga-aatttctgaaatctatcagaaag-gtggttt-------tcatcttgg-ggtttaccaaatactgtatagaatctgcgtgggctaaatctattgaaatttg-------------cagGTAATGTGGAAATGCGCTGGATTGATACATATTTCCCTTTCACCAACCCATCATTTGAACTTGAGATGTATTTTCAG
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gtacattaagatccaataaacaatctatattcttcagcaagtgtaaataacttcaaagatggtttattaagagttgtttaggatgattatttcattaatttaagaagaagttggggaaatatacatgaaataatttgatctgagcttctttttttggctgccagGTTCGGTGGAGATGAGATGGGTTGATACATATTTCCCATTTACCAATCCATCTTTTGAGCTTGAGATATATTTTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtttaccaaatactgtatagaatctgcgtgggctaaatctattgaaatttgcagGTAATGTGGAAATGCGCTGGATTGATACATATTTCCCTTTCACCAACCCATCATTTGAACTTGAGATGTATTTTCAG
ggctaaa putative branch site (score: 3)
taaatctattgaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttgaaatttctgaaatctatcagaaaggtggttttcatcttggggtttaccaaatactgtatagaatctgcgtgggctaaatctattgaaatttgcagGTAATGTGGAAATGCGCTGGATTGATACATATTTCCCTTTCACCAACCCATCATTTGAACTTGAGATGTATTTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - atcagaaa
- - - - - - - - - - - - - - ggtggtt
- - - - - - - - - - - - - - - - - - - - - - - - -taccaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcgtgg