Sequence
atgc intronic sequence ATGC exonic sequence...tttctttagaaaatctagtataaacattgaaatgggtaattcaaaatataaagcattaaaatgtttatattcaatttcctaatttagaagttttatgcagGTTGTATATGATGCAAATAAACTTGCAAAATTGGTCAAGAAGAAGGAAAAAATGCAGAATTGGCTTGACTATTATCAAATTAAATATTCTAGAAATGAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0116g00940.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g35050.3 (Oryza sativa), 3'ss of exon 5
tttctttagaaaatctagtataaacattgaaatgggtaattcaaaatataaagca--ttaaaatgtttatattcaatttcctaatttagaagttttatgcagGTTGTATATGATGCAAATAAACTTGCAAAATTGGTCAAGAAGAAGGAAAAAATGCAGAATTGGCTTGACTATTATCAAATTAAATATTCTAGAAATGAAT
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ttagttttaactgcttatcgttacta--aaaaaaaaaaatctatgctctgatatggcttaccactaccatgttcttatcattcatttcatggactggtatagGTTGTCTATAATGCAAATAAGCTTGATAAGATGGTCAAAGAGAAGAAGAAAATGCAGAATTGGCTTGATTACTATCAGCTGAAATATGAAAGAAATACAT
upper sequence: Vv10s0116g00940.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G021194_T01 (Zea mays), 3'ss of exon 5
-tttctttagaaaatctagta--taaacattgaaatgggtaattcaaaatataaagcattaaaatgtttatattcaatttcctaatttagaagttttatgcagGTTGTATATGATGCAAATAAACTTGCAAAATTGGTCAAGAAGAAGGAAAAAATGCAGAATTGGCTTGACTATTATCAAATTAAATATTCTAGAAATGAAT
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atttttgtttgattccttgtaatttatttttaaaattgtttttctgtaaaacaga--atcagacatgctatgtttgatttattg-catgcacttattttgtagGTGGTTTACAATGCAAATAAACTTGCTAAATTGGTGAAAGAGAAAGCAAAGATGCATAATTGGCTTGACTACTATCAGCTGAGATTTGAAAGGAATGCAT
upper sequence: Vv10s0116g00940.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G163334_T01 (Zea mays), 3'ss of exon 4
tttctttagaaaatctagtataa-acattgaaatgggtaattcaaaatataaagcattaaaatgtttatattcaatttcctaatttagaagttttatgcagGTTGTATATGATGCAAATAAACTTGCAAAATTGGTCAAGAAGAAGGAAAAAATGCAGAATTGGCTTGACTATTATCAAATTAAATATTCTAGAAATGAAT
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ggagaactgcgcatcttatatattagagaggaataaaaaccttacaaaaaggagatgttgctgagctatgtttgatttattg-catgcacttgttttgtagGTGGTTTACAATGCAAATAAACTTGCTAAATTGGTGAAAGAGAAAGCAAAGATGCATAATTGGCTTGACTACTATCAGCTGAGATTTGAAAGGAATGCAT
upper sequence: Vv10s0116g00940.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G01400.1 (Glycine max), 3'ss of exon 4
tttctttagaaaatctagtataaacattgaaatgggtaattcaaaatataaagcattaaaatgtttatattcaatttcctaat-ttagaagttttatgcagGTTGTATATGATGCAAATAAACTTGCAAAATTGGTCAAGAAGAAGGAAAAAATGCAGAATTGGCTTGACTATTATCAAATTAAATATTCTAGAAATGAAT
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-ttattgcgacaatgtcatttttccctttcatttgggactttgaggggggggggggggggataatgtttcagcatattttattgttgtgacattaatgcagGTTGTTTATAATGCAAACAAACTTGCAAAGTTGGTTAAAAAGAAGAAGAAGTTGCAGAATTGGCTTGTATATTATCAAAACAAAGTTGAAAGAACTTCAG
upper sequence: Vv10s0116g00940.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G39320.1 (Glycine max), 3'ss of exon 5
---------tttctttagaaaatctagtataaacattgaaatgggtaattcaaaatataaagcattaaaatgtttatattcaatttcctaatttagaagttttatgcagGTTGTATATGATGCAAATAAACTTGCAAAATTGGTCAAGAAGAAGGAAAAAATGCAGAATTGGCTTGACTATTATCAAATTAAATATTCTAGAAATGAAT
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gatctatctattattacgacaatgtaattttcccctttcatttgggactttgagaggggggaaat---aatgttt-----cagcatatttattgtgacatta-atgcagGTTGTTTATAATGCAAACAAACTTGCAAAGTTGGTTAAAAAGAAGAAGAAGTTGCAGAATTGGCTTGTATATTATCAAAACAAAGTTGAAAGAACTTCAG
upper sequence: Vv10s0116g00940.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G10490.1 (Glycine max), 3'ss of exon 5
tttctttagaaaatctagtataaacattgaa--atgggtaattcaaaatataaagcattaaaatgtttatattcaatttcctaatttagaagttttatgcagGTTGTATATGATGCAAATAAACTTGCAAAATTGGTCAAGAAGAAGGAAAAAATGCAGAATTGGCTTGACTATTATCAAATTAAATATTCTAGAAATGAAT
||| |||| | | | | | | ||| || | | | | || | || | || ||| | | ||||| ||| ||||||||| |||||||| || |||||||| || ||||| || |||||| | || || |||||||||||| ||| ||||||| ||| | |||| | |
ttttgcatacaaattttgaaaacatttagaattatcattgtatttttcttttaatggtagaagtagtttgtgtcagcctatttatttaacg--tttgcgcagGTTGTTTATGATGCCAACAAACTTGCTAAGTTGGTTAAAAAGAAGAAGAAGTTGAAGAATTGGCTTGTCTACTATCAAAATAAGCTTGAAAGAACTTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atataaagcattaaaatgtttatattcaatttcctaatttagaagttttatgcagGTTGTATATGATGCAAATAAACTTGCAAAATTGGTCAAGAAGAAGGAAAAAATGCAGAATTGGCTTGACTATTATCAAATTAAATATTCTAGAAATGAAT
tcctaat putative branch site (score: 2)
attaaaatgtttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttctttagaaaatctagtataaacattgaaatgggtaattcaaaatataaagcattaaaatgtttatattcaatttcctaatttagaagttttatgcagGTTGTATATGATGCAAATAAACTTGCAAAATTGGTCAAGAAGAAGGAAAAAATGCAGAATTGGCTTGACTATTATCAAATTAAATATTCTAGAAATGAAT
- - - -agaaaat
- - - - - - - - - -ataaaca
- - - - - - - - - - - - - - - - - - - - -caaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - attaaaa