Sequence
atgc intronic sequence ATGC exonic sequence...catattatagtttacttactgatgtgtttgttttcctgattttatttcattgtaaaatgaatggagccttaatgaatctaatgcaaggaaatcatcgcagAAAAAAATTGGGATTTAAAAATTCCAGGATACTCGAGTGAAGAGCAGAAGAACCAAACAAAACCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g01420.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G00910.1 (Glycine max), 3'ss of exon 7
--------------------------------------------------------------------------------catattatagtttacttactg-atgtgtttgttttcctgattttatttcattgtaaaat-gaatgg-------agccttaatga---atctaat-gcaaggaaatcatcgcagAAA-AAAATTGGGATTTAAAAATTCCAGGATACTCGAGTGAAGAGCAGAAGAACCAAACAAAACCT
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gtattaattaaaaagctgaaaaatgaatcacaaaaagtgagacattccagcacaaacatccacatcatacatatagaattcatgctgcataatacatacagcacctaattgggattataactattattatttgttaaatagaattgacatttcagccttgctgatttatctgtttgccctgtgat-attgcgcagAGAAAATTGGGATTTAAAAATTCCCGGATACTCAAGTGAAGAGAAGAAGAATCAGAACAAACCT
upper sequence: Vv09s0002g01420.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G04200.2 (Glycine max), 3'ss of exon 5
catattatagtttacttactgatgtgtttgttttcctgattttatttcattgtaaaatgaatgg-agccttaatga---atctaatgcaaggaaatcatc--gcagAAAAAAATTGGGATTTAAAAATTCCAGGATACTCGAGTGAAGAGCAGAAGAACCAAACAAAACCT-----------------------------------
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------atgcttgaattgatagtgtattattattattattatttgttaaatagaatctacatcttagctttgctgatttatctgtttgccatgtgttattgtgcagAGAAAAATTGGGATTTAACAATTCCCGGATACTCAAGTGAAGAGAAGAAGAATCAGAGCAAACCTGTAAGCAACAAAGCATTTCTCTCTCTTCCCCTTCT
upper sequence: Vv09s0002g01420.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G04200.1 (Glycine max), 3'ss of exon 5
catattatagtttacttactgatgtgtttgttttcctgattttatttcattgtaaaatgaatgg-agccttaatga---atctaatgcaaggaaatcatcg--cagAAAAAAATTGGGATTTAAAAATTCCAGGATACTCGAGTGAAGAGCAGAAGAACCAAACAAAACCT
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------atgcttgaattgatagtgtattattattattattatttgttaaatagaatctacatcttagctttgctgatttatctgtttgccatgtgttattgtgcagAGAAAAATTGGGATTTAACAATTCCCGGATACTCAAGTGAAGAGAAGAAGAATCAGAGCAAACCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcattgtaaaatgaatggagccttaatgaatctaatgcaaggaaatcatcgcagAAAAAAATTGGGATTTAAAAATTCCAGGATACTCGAGTGAAGAGCAGAAGAACCAAACAAAACCT
atctaat putative branch site (score: 3)
ttaatgaatctaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catattatagtttacttactgatgtgtttgttttcctgattttatttcattgtaaaatgaatggagccttaatgaatctaatgcaaggaaatcatcgcagAAAAAAATTGGGATTTAAAAATTCCAGGATACTCGAGTGAAGAGCAGAAGAACCAAACAAAACCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - ctgatgt
- - - - - - - - - - - - - - - - ttcctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - aaatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggagcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcaagga