Sequence
atgc intronic sequence ATGC exonic sequence...acattatctatcatatgctttattttttccgatccttatctttttatctttcctttatgatttttataattcatgatgctgtaaagctgttctgatgtagACATACCTGCAATCTATCACTGTGCGGCTTGAGGAATGGAGACTCAAGCGAAGAGACACTGAGGAATGGATGAGGCATCGCCAACTCCCTGAAGATTTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0065g00930.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g54760.1 (Oryza sativa), 3'ss of exon 5
acattatctatcatatgctttattttttccgatccttatctttttatctttcctttatgatttttataattcatgatgctgtaaagctgttctgatgtagACATACCTGCAATCTATCACTGTGCGGCTTGAGGAATGGAGACTCAAGCGAAGAGACACTGAGGAATGGATGAGGCATCGCCAACTCCCTGAAGATTTGA
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------------gtaatttttaaatgtttag-tgatcatgtctaca-ctacgattgattcttttggcacttttttatacactgctactatttt--tccagACCTACTTGCAATCTATCACTGTGAGGGTTGAGGAATGGAGATTAAAACAAAGAGATACAGAGGAGTGGATGAGGCATCGTCAACTCCCACATGAACTAC
upper sequence: Vv11s0065g00930.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os06g08850.1 (Oryza sativa), 3'ss of exon 5
acattatctatcatatgctttattttttccgatccttatctttttatctttcctttatgatttttataattcatgatgct-gtaaagctgttctgat--gtagACATACCTGCAATCTATCACTGTGCGGCTTGAGGAATGGAGACTCAAGCGAAGAGACACTGAGGAATGGATGAGGCATCGCCAACTCCCTGAAGATTTGA
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--atgat-tatactagtaaataccattacaacctcttagcttcaaaggcgtacataattttctttaagaaatattgagctcatcacattatattgtttgctagACCTACCTGCAATCTATCACTGCAAGAGTTGAGGAGTGGAGAATAAAGCAAAGAGATACGGAAGAATGGATGAGGCATCGGCAACTTCCTCAGAAACTAA
upper sequence: Vv11s0065g00930.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G005791_T01 (Zea mays), 3'ss of exon 4
-------------------------acattatctatcatatgctttattttttccgatccttat-ctttttatctttcctttatgattttt---ataattcatgatgct----------gtaaagctgttctgatgtagACATACCTGCAATCTATCACTGTGCGGCTTGAGGAATGGAGACTCAAGCGAAGAGACACTGAGGAATGGATGAGGCATCGCCAACTCCCTGAAGATTTGA
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gtactttttatccactctactgcatactttatattgtacaggctttttatatgtgaacaataatactcgctttggataatttattaattttgacataatttggaattttctgtcttacaacatgatgattattatcaagACCTACCTGCAATCTATTACTGTGAGGGTTGAGGAATGGAGATTAAAGCAAAGAGATACTGAGGAATGGATGAGACATCGTCAGCTTCCTTGTGAACTGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctttcctttatgatttttataattcatgatgctgtaaagctgttctgatgtagACATACCTGCAATCTATCACTGTGCGGCTTGAGGAATGGAGACTCAAGCGAAGAGACACTGAGGAATGGATGAGGCATCGCCAACTCCCTGAAGATTTGA
ttctgat putative branch site (score: 3)
ctgttct CT-rich tract
tttatgatttttataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acattatctatcatatgctttattttttccgatccttatctttttatctttcctttatgatttttataattcatgatgctgtaaagctgttctgatgtagACATACCTGCAATCTATCACTGTGCGGCTTGAGGAATGGAGACTCAAGCGAAGAGACACTGAGGAATGGATGAGGCATCGCCAACTCCCTGAAGATTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - -catatgc
- - - - - - - - - - - - - - ccgatcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgatg