Sequence
atgc intronic sequence ATGC exonic sequence...gtttattcttatccactgttaatcaatatagtgttagtttgttactgtggtcttggtctgtccaaatgccagccaacctttaatacatgtgctgtttcagCTATGGGTGGGTCCTGGGAGTAAAGCTGCAGAAGAGAAACAATTTTTTGATAGCCACCTAGCTCCTTTTTACAGAATTGAACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0122g01280.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G02020.1 (Glycine max), 3'ss of exon 10
gtttattcttatccac-tgttaatcaatatagtgttagtttgttactgtggtcttggtctgtccaaatgccagccaacctttaa-tacatgtgctgtttcagCTATGGGTGGGTCCTGGGAGTAAAGCTGCAGAAGAGAAACAATTTTTTGATAGCCACCTAGCTCCTTTTTACAGAATTGAACAG
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-tctaggctacttgatatgtgaacatttctttttttatcttcttgatatattttttttttaccttagtggattttggcaaataacttcctacact-ttttagCTCTGGGTAGGACCTGGGAGTAAAGCAGCACAAGAGAAACAGTTTTTTGATACTCATCTTGCTCCATTTTACAGAATTGAACAG
upper sequence: Vv18s0122g01280.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G01900.1 (Glycine max), 3'ss of exon 5
gtttattcttatccactgttaatcaatatagtgttagtttgttactgtggtcttggtctgtccaaatgcc--agccaacct------ttaatacatgtgctgtttcagCTATGGGTGGGTCCTGGGAGTAAAGCTGCAGAAGAGAAACAATTTTTTGATAGCCACCTAGCTCCTTTTTACAGAATTGAACAG
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------tagtgtcaag-gctacttgatatctgaacatttcttttttatcttcttgatatatctctttaccttagtggatttggcaaataacttcctacact-ttttagCTCTGGGTAGGACCTGGGAGTAAAGCAGCACAAGAGAAGCAGTTTTTTGACACTCATCTTGCTCCATTTTACAGAATTGAACAG
upper sequence: Vv18s0122g01280.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G42470.1 (Arabidopsis thaliana), 3'ss of exon 8
gtttattcttatccactgttaatcaatatagtgttagtttgttactgtggtcttggtctgtccaaatgccagccaacctttaatacatgtgctgtttcagCTATGGGTGGGTCCTGGGAGTAAAGCTGCAGAAGAGAAACAATTTTTTGATAGCCACCTAGCTCCTTTTTACAGAATTGAACAG
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gtatgtacttggtttcttt--gcccctttcttattg--ctgttacaa-gctattgctatatgcaacctttgtaaatgtttttatat-tgta-tgttgcagCTGTGGGTAGGATCAGGTAGCAGAGCTGCTGAAGAGAAACAATTCTTTGACACTCATCTTGCTCCTTTCTACAGAATTGAACAG
upper sequence: Vv18s0122g01280.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S96_146V6.2 (Physcomitrella patens), 3'ss of exon 9
-----------gtttattcttatccactgttaatcaatatagtgttagtttgttactgtggtcttggtctgtccaaatgccagccaacctttaatacat--gtgctgt----ttcagCTATGGGTGGGTCCTGGGAGTAAAGCTGCAGAAGAGAAACAATTTTTTGATAGCCACCTAGCTCCTTTTTACAGAATTGAACAG
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gtaatttatcaatttcaccttattaaatatatgttgatttcaccataaaatgtttacatgttggttgtgaagaagattatgaacttattactaagactttgggattgtggtttccagCTTTGGGTGAGTCCTGGAAGTAAAGCTGCAGAAGAAAAAGAGTTTTTCGACAGTCACCTAGCGCCCTTCTACCGAATTGAGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtggtcttggtctgtccaaatgccagccaacctttaatacatgtgctgtttcagCTATGGGTGGGTCCTGGGAGTAAAGCTGCAGAAGAGAAACAATTTTTTGATAGCCACCTAGCTCCTTTTTACAGAATTGAACAG
ctttaat putative branch site (score: 4)
ctgtttc putative PPT
tttaatacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttattcttatccactgttaatcaatatagtgttagtttgttactgtggtcttggtctgtccaaatgccagccaacctttaatacatgtgctgtttcagCTATGGGTGGGTCCTGGGAGTAAAGCTGCAGAAGAGAAACAATTTTTTGATAGCCACCTAGCTCCTTTTTACAGAATTGAACAG
- - - - - -tccactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccagcca