Sequence
atgc intronic sequence ATGC exonic sequence...ccaggcgctgtgttttctcttcttctttctcctttcctttttttcagcaggtaatagtgtgtcagctttgataaatgtttaatcacccttggttatgcagTGAACGTGCAGTCTTTATCTGGCTCGCCTGCAAATTTTCAAGTTTACACTGCACTATTAAAAGCTCATGAAAGAATTATGGCACTTGATCTTCCTCATGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0211g00120.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os03g52840.2 (Oryza sativa), 3'ss of exon 5
ccaggcgctgtgttttct---cttcttctttctcctttcctttttttcagcaggtaatagtgtgtcagctttgataaatgtttaatcacccttggttatgcagTGAACGTGCAGTCTTTATCTGGCTCGCCTGCAAATTTTCAAGTTTACACTGCACTATTAAAAGCTCATGAAAGAATTATGGCACTTGATCTTCCTCATGG
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ttgtacttaaatttatctagaatacttattctcaaaattttagttttctttctccaaaaaggtggcattctaacttgacaaccaatttc---tacctctgcagTGAATGTGCAACCTCTATCAGGGTCACCTGCCAACTTCCATGTTTACACTGCCCTATTGAAACCACATGAGAGAATCATGGCTTTGGATCTTCCTCATGG
upper sequence: Vv00s0211g00120.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G37270.1 (Glycine max), 3'ss of exon 5
ccaggcgctgt-gttttctcttcttctttc-tcctttcctttttttcagcaggtaatagtgtgtcagctttgataaatgtttaatcacccttggttatgcagTGAACGTGCAGTCTTTATCTGGCTCGCCTGCAAATTTTCAAGTTTACACTGCACTATTAAAAGCTCATGAAAGAATTATGGCACTTGATCTTCCTCATGG
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ataatcactgaagagttttcttgatgttcaatagatccattaaaagtattaggtgtttgtttaagtcttctgatatgtcactgttaccccttaatt--gcagTGAACGTGCAGCCTCTGTCAGGGTCTCCTGCAAATTTCCACGTTTACACTGCATTGCTTAAACCTCATGAAAGAATCATGGCACTTGATCTTCCTCATGG
upper sequence: Vv00s0211g00120.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G27710.1 (Glycine max), 3'ss of exon 6
ccaggcgct---gtgttttctcttcttctttctcctttcctttttttcagcaggtaatagtgtgtcagctttgataaatgtt-taatcacccttggttatgcagTGAACGTGCAGTCTTTATCTGGCTCGCCTGCAAATTTTCAAGTTTACACTGCACTATTAAAAGCTCATGAAAGAATTATGGCACTTGATCTTCCTCATGG
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--aatcacttaagagctttttcaatgtccta-tagattcattaaattttgaaataaattttgtccaagtcttctgatatgccactgttaccccttaat-tgcagTGAACGTGCAGCCTCTGTCAGGGTCTCCTGCAAATTTCCATGTCTACACTGCATTGCTTAAACCTCATGAAAGAATCATGGCACTTGATCTTCCTCATGG
upper sequence: Vv00s0211g00120.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G33480.1 (Glycine max), 3'ss of exon 5
ccaggcgctgt-gttttctcttcttctttctcctttcctttttttcagcaggtaatagtgtgtcagctttgataaatgt-ttaatcacccttggttatgcagTGAACGTGCAGTCTTTATCTGGCTCGCCTGCAAATTTTCAAGTTTACACTGCACTATTAAAAGCTCATGAAAGAATTATGGCACTTGATCTTCCTCATGG
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-atgacatcattagcttttctaaggttgagtatattaatttttaaaaatatatattacattgcatgtttcctcatttgtcttttttacccctaatt-tgcagTGAACGTGCAGCCTCTGTCTGGTTCTTCTGCCAATTTTCAAGTTTACACTGCATTGCTAAAACCTCATGATAGAATCATGGGACTTGATCTACCACATGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcaggtaatagtgtgtcagctttgataaatgtttaatcacccttggttatgcagTGAACGTGCAGTCTTTATCTGGCTCGCCTGCAAATTTTCAAGTTTACACTGCACTATTAAAAGCTCATGAAAGAATTATGGCACTTGATCTTCCTCATGG
gtttaat putative branch site (score: 4)
tttgataaatgtttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccaggcgctgtgttttctcttcttctttctcctttcctttttttcagcaggtaatagtgtgtcagctttgataaatgtttaatcacccttggttatgcagTGAACGTGCAGTCTTTATCTGGCTCGCCTGCAAATTTTCAAGTTTACACTGCACTATTAAAAGCTCATGAAAGAATTATGGCACTTGATCTTCCTCATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
-caggcgc
- - - - - - - -tctcttc
- - - - - - - - - - - - - - - cctttcc
- - - - - - - - - - - - - - - - - - - - - - - gcaggta