Sequence
atgc intronic sequence ATGC exonic sequencegttcactatgttttttgtttgatagaacactcgctcatgggttttccagcatgaccttctttgtctgttgctttttcttatgttaatacaactttatggcaaaaatattgaatcagAACAATTGCCTATACAAATCACACTGTCCTTCCTGAAGCACTTGAGAAATGGTCACAAGTTGTAATGTGGAAGCTTCTTCCACGCCATATGGAAATCATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g63270.1 (Oryza sativa), 3'ss of exon 7
-----gttcactatgttttttg----tttgatagaacactcgctcatgggttttccagcatgaccttctttgtctgttgctttttcttatgt---taatacaactttatggc--------aaaaata------ttgaat----cagAACAATTGCCTATACAAATCACACTGTCCTTCCTGAAGCACTTGAGAAATGGTCACAAGTTGTAATGTGGAAGCTTCTTCCACGCCATATGGAAATCATA
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gtgagctctaatatgacaagtgacaatataatttgatctcttttcttatctttttccaccattgtttatttttccgcttttcattttaacaagagtaattcaacttaaaagcttgacctaatcaataaattatttgaatggtccagAACAATTGCCTACACCAATCACACTGTTCTTCCTGAAGCCCTTGAGAAATGGTCGCAGATTGTAATGAGGAAATTACTTCCACGACACATGGAAATTATC
upper sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G45210.1 (Glycine max), 3'ss of exon 8
----gttcactatg---ttttttgtttgatagaacactcgctcatgggttttccagcatgaccttctttgtctgt----tgctttttcttatgttaatacaactttatggcaaaaatattgaatcagAACAATTGCCTATACAAATCACACTGTCCTTCCTGAAGCACTTGAGAAATGGTCACAAGTTGTAATGTGGAAGCTTCTTCCACGCCATATGGAAATCATA
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gtcagttaattgtagaaaatgttgttagcaatgattattttccattttctttattccaccacccctcacaattgtagtgtattactcattacctcatcactaaaacatgatgctatatcttaaccagGACTATTGCGTACACTAATCATACTGTCCTCCCTGAAGCACTGGAGAAATGGTCTCAACCTGTAATGTGGAAACTACTTCCACGCCATATGGAAATCATA
upper sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA18G07480.1 (Glycine max), 3'ss of exon 7
----gttcactatgttttttgtttgatagaacactcgctcatgggttttccagcatgaccttctttgtctgttgctttttcttatgttaataca--actttatggcaaaaatat-----------tgaatcagAACAATTGCCTATACAAATCACACTGTCCTTCCTGAAGCACTTGAGAAATGGTCACAAGTTGTAATGTGGAAGCTTCTTCCACGCCATATGGAAATCATA
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gtcagtaaattgtagataatgtttttaggaatggttattttccattttctttgttccaccacccctcacagttgtagtgtattattacacctcattaacttgccactaaaacatgatgctacatcttaaccagGACTATTGCTTACACTAATCATACTGTCCTCCCTGAAGCACTAGAGAAATGGTCTCAACCTGTAATGTGGAAACTGCTTCCACGCCATATGGAAATCATA
upper sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G46970.1 (Arabidopsis thaliana), 3'ss of exon 8
gttcactatgttttttgtttgatagaacactcgctcatgggttttccagcatgaccttctttgtctgttgctttttcttatgttaatacaactttatggcaaaaatattgaatcagAACAATTGCCTATACAAATCACACTGTCCTTCCTGAAGCACTTGAGAAATGGTCACAAGTTGTAATGTGGAAGCTTCTTCCACGCCATATGGAAATCATA
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---------------------gtaaaatatttatgcatgaacctttcaatatttcccaacaaagttttcacacttttctgttgggacttatttatatggttta----------cagGACCGTTGCTTACACCAATCACACTGTCCTTCCTGAAGCGTTGGAGAAATGGTCACAATCTTTGATGTGGAAGCTTCTTCCTCGTCATATGGAAATAATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtctgttgctttttcttatgttaatacaactttatggcaaaaatattgaatcagAACAATTGCCTATACAAATCACACTGTCCTTCCTGAAGCACTTGAGAAATGGTCACAAGTTGTAATGTGGAAGCTTCTTCCACGCCATATGGAAATCATA
tgttaat putative branch site (score: 3)
tttttcttatgttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcactatgttttttgtttgatagaacactcgctcatgggttttccagcatgaccttctttgtctgttgctttttcttatgttaatacaactttatggcaaaaatattgaatcagAACAATTGCCTATACAAATCACACTGTCCTTCCTGAAGCACTTGAGAAATGGTCACAAGTTGTAATGTGGAAGCTTCTTCCACGCCATATGGAAATCATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG