Sequence
atgc intronic sequence ATGC exonic sequencegtcattctcttacacatctgttgttgaaactagataatatatgccttccccttttgttaatttaaatatattgctgtttcctattgggagattctttgattacattgttcttttaggtgatttgttaaatgtagatgaatgtgactatgattttcttaatttctttttgcagCAATACCCATATGATATTCCTACTGAGGCCTTTCCATTTGAGATTTTCAAACAAGCTTTTGTTGCAATTCAGTCTTGTGTGGTGCATTTACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0171g00310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os12g13460.1 (Oryza sativa), 3'ss of exon 4
gtcattctcttacacatctgttgttgaaactagataatatatgccttccccttttgttaatttaaatatattgctgtttcctattgggagattctttgattacattgttcttttaggtgatttgttaaatgtagatgaatgtgactatgattttcttaatttctttttgcagCAATACCCATATGATATTCCTACTGAGGCCTTTCCATTTGAGATTTTCAAACAAGCTTTTGTTGCAATTCAGTCTTGTGTGGTGCATTTACAG
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-------------------------------------------------------------------------gtgctttcttttga-----ccttccaaaatgttcctgtctctgggattctgttgcac-tagctgcttgttgttctcatgtc---aactg--ttatgcagCAATATCCTTTTGACATACCTACCGAGGCTTTTCCATTTGAGATCTTCAAGCAAGCTTTTGTCGCAGTACAGTCTTGCGTGGTCCATTTGCAG
upper sequence: Vv14s0171g00310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AC198982.3_FGT006 (Zea mays), 3'ss of exon 2
gtcattctcttacacatctgttgttgaaactagataatatatgccttccccttttgttaatttaaatatattgctgtttcctattgggagattctttgattacattgttcttttaggtgatttgttaaatgtagatgaatgtgactatgattttc--ttaatttctttttgcagCAATACCCATATGATATTCCTACTGAGGCCTTTCCATTTGAGATTTTCAAACAAGCTTTTGTTGCAATTCAGTCTTGTGTGGTGCATTTACAG
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--------------------------------------------------------------------------------gtattccttgatcttccaagcatatt--tccttcaag-gattggcta--tttcgttaacttattctatttctcacagttattattgttttgcagCAATATCCTTTTGACATACCTACTGAGGCTTTTCCGTTTGAAATATTCAAGCAGGCTTTTGTTGCAGTACAGTCTTGTGTTGTTCATTTGCAG
upper sequence: Vv14s0171g00310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G047695_T01 (Zea mays), 3'ss of exon 4
gtcattctcttacacatctgttgttgaaactagataatatatgccttccccttttgttaatttaaatatattgctgtttcctattgggagattctttgattacattgttcttttaggtgatttgttaaatgtagatgaatgtgactatgattttctta---atttctttttgcagCAATACCCATATGATATTCCTACTGAGGCCTTTCCATTTGAGATTTTCAAACAAGCTTTTGTTGCAATTCAGTCTTGTGTGGTGCATTTACAG
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--------------------------------------------------------------------------------gtattccttgatctttcaagcatattttctttctagg--attggctatatc---atcaac-tgatcctctttctcacagcgatttttgttttcagCAATATCCTTTTGACATACCTACTGAGGCTTTTCCGTTTGAAATATTCAAGCAGGCTTTTGTTGCAGTACAGTCTTGTGTGGTTCATTTGCAG
upper sequence: Vv14s0171g00310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G22520.2 (Glycine max), 3'ss of exon 4
gtcattctcttacacatctgttgttgaaactagataatatatgccttccccttttgttaatttaaatatattgctgtttcctattgggagattctttgattacattgttcttttaggtgatttgttaaatgtagatgaatgtgactatgattttcttaatttctttttgcagCAATACCCATATGATATTCCTACTGAGGCCTTTCCATTTGAGATTTTCAAACAAGCTTTTGTTGCAATTCAGTCTTGTGTGGTGCATTTACAG
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--------------------------------------------------------------------------------gtaataaaat-ttccccgaacaagttcagtagttatgtacattttgagatttag-----tgcttacattatttgcataaata--taatgcagCAATATCCATATGACATTCCTACTGAGGCCTTTTCATTTGAGATTTTCAAACAAGCCTTTGCTGCTATTCAGTCTTGTGTGGTGCATTTACAG
upper sequence: Vv14s0171g00310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G07100.1 (Glycine max), 3'ss of exon 4
gtcattctcttacacatctgttgttgaaactagataatatatgccttccccttttgttaatttaaatatattgctgtttcctattgggagattctttgattacattgttcttttaggtgatttgttaaatgtagatgaatgtgactatgattttcttaatttctttttgcagCAATACCCATATGATATTCCTACTGAGGCCTTTCCATTTGAGATTTTCAAACAAGCTTTTGTTGCAATTCAGTCTTGTGTGGTGCATTTACAG
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--------------------------------------------------------------------------------gtaataaaaaataccct-ataacaa-gttcagt--agttatttacattttgacatttagtgcttacattatatgcataaata--taatgcagCAATATCCATATGACATTCCTACTGAAGCCTTTTCATTTGAGATTTTCAAACAAGCCTTTGCTGCTATTCAGTCTTGTGTGGTGCATTTACAG
upper sequence: Vv14s0171g00310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G14260.2 (Arabidopsis thaliana), 3'ss of exon 4
gtcattctcttacacatctgttgttgaaactagataatatatgccttccccttttgttaatttaaatatattgctgtttcctattgggagattctttgattacattgttcttttaggtgatttgttaaatgtagatgaatgtgactatgattttcttaatttctttttgcagCAATACCCATATGATATTCCTACTGAGGCCTTTCCATTTGAGATTTTCAAACAAGCTTTTGTTGCAATTCAGTCTTGTGTGGTGCATTTACAG
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-----------------------------------------------------------------gtgtttggctacctacgatttcggcttcttcttgtca-----ttttaatatatggaatgctaaacatcggcc--tcggacttacaccattttatttgtgttttgcagCAATACCCATTTGACATACCAACTGAAGCTTTTTCATTTGAGATTTTCAAACAGGCATTTGTTGCCATTCAGTCATGTGTGGTGCATTTACAAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|351022792|gb|FQ428701.1|FQ428701EST: AATATAATGAGCTTGATACTGTCTGGTTTATGGCTGGATCTCTGTTTCAG CAATACCCATATGATATTCCTACT
genomic: AATATAATGAGCTTGATACTGTCTGGTTTATGGCTGGATCTCTGTTTCAGgtcattctct ... ctttttgcagCAATACCCATATGATATTCCTACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatttgttaaatgtagatgaatgtgactatgattttcttaatttctttttgcagCAATACCCATATGATATTCCTACTGAGGCCTTTCCATTTGAGATTTTCAAACAAGCTTTTGTTGCAATTCAGTCTTGTGTGGTGCATTTACAG
tcttaat putative branch site (score: 3)
ttttcttaatttcttt CT-rich tract
tatgattttcttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcattctcttacacatctgttgttgaaactagataatatatgccttccccttttgttaatttaaatatattgctgtttcctattgggagattctttgattacattgttcttttaggtgatttgttaaatgtagatgaatgtgactatgattttcttaatttctttttgcagCAATACCCATATGATATTCCTACTGAGGCCTTTCCATTTGAGATTTTCAAACAAGCTTTTGTTGCAATTCAGTCTTGTGTGGTGCATTTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT