Sequence
atgc intronic sequence ATGC exonic sequence...agtaggtcttaagcataattaatgtgaaaaatgaaaaaaaaaatgcagatttatttggttgattacacttctcattttccatttgtttcaaatggttcagGTGGTCTCAGATCGCGGCGCGCCTACCAGGGAGGACCGACAATGAAATAAAGAACTTCTGGAACTCTACCATCAAGAAAAGGCTGAAAAACAGCTTGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0064g00960.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os12g33070.1 (Oryza sativa), 3'ss of exon 1
agtaggtcttaagcataattaatgtgaaaaatgaaaaaaaaaatgcagatttatttggttgattacacttctcattttccatt-tgtttcaaatggtt-cagGTGGTCTCAGATCGCGGCGCGCCTACCAGGGAGGACCGACAATGAAATAAAGAACTTCTGGAACTCTACCATCAAGAAAAGGCTGAAAAACAGCTTGCAG
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--catagctatagctaagcttggataataattcttgacagaaacatctcgtttgctcactgatgaaaaatctaccgtactacgacgcatggaattattgcagGTGGTCTCAGATCGCTGCCCGGCTACCGGGGCGCACCGACAACGAGATCAAGAACTTCTGGAACTCCACCATCAAGAAGCGCCTCAAGATCTCCTCCTCC
upper sequence: Vv13s0064g00960.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G052606_T01 (Zea mays), 3'ss of exon 1
agtaggt-cttaagcataattaatgtgaaaaatgaaaaaaaaaatgcagatttatttggttgattacacttc--tcattttccatttgtttcaa-atggttcagGTGGTCTCAGATCGCGGCGCGCCTACCAGGGAGGACCGACAATGAAATAAAGAACTTCTGGAACTCTACCATCAAGAAAAGGCTGAAAAACAGCTTGCAG
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-gtacgtacgtacgcatgac--actttctctctgacagaaagatcctggatcgatc-gtttgcttactgtgaaatcaaccctcacttgcgacattatattccagGTGGTCTCAGATTGCTGCCCGGTTGCCGGGGCGCACCGACAACGAGATCAAGAACTTCTGGAACTCCACCATCAAGAAGCGGCTCAAGAACAGCTCGGCA
upper sequence: Vv13s0064g00960.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S277_14V6.1 (Physcomitrella patens), 3'ss of exon 2
-agtaggtcttaagcataattaatgtgaaaaatgaaaaaaaaaatgcagatttatttggttgattacacttctcattttccatttgtttcaaatggttcagGTGGTCTCAGATCGCGGCGCGCCTACCAGGGAGGACCGACAATGAAATAAAGAACTTCTGGAACTCTACCATCAAGAAAAGGCTGAAAAACAGCTTGCAG-
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tcatcgatgagaggcagaagggccg-gattgtagtctctgcagctacatgtgctccttgcaaatgttgagttaaagcagaatttgatcctgtataatgcagGTGGTCACAGATTGCAACCCAGCTACCAGGCCGCACGGACAACGAAATAAAAAACTTCTGGAACTCTTGCATCAAGAAGAAGCTGCGTAACA-TCGGCATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagatttatttggttgattacacttctcattttccatttgtttcaaatggttcagGTGGTCTCAGATCGCGGCGCGCCTACCAGGGAGGACCGACAATGAAATAAAGAACTTCTGGAACTCTACCATCAAGAAAAGGCTGAAAAACAGCTTGCAG
ggttgat putative branch site (score: 5)
atttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtaggtcttaagcataattaatgtgaaaaatgaaaaaaaaaatgcagatttatttggttgattacacttctcattttccatttgtttcaaatggttcagGTGGTCTCAGATCGCGGCGCGCCTACCAGGGAGGACCGACAATGAAATAAAGAACTTCTGGAACTCTACCATCAAGAAAAGGCTGAAAAACAGCTTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - ttaagca
- - - - - - - - - - - - tgaaaaa
- - - - - - - - - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - -tgcagat
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tggttga