Sequence
atgc intronic sequence ATGC exonic sequencegtgagaatctttctctttctttgtgttctaaaaagaccaccaaaaacaaccaaaacttttacatttcctcatctttcttgagagcattaaaataaattgatattgttgtgtttgcagCTCTTTAAGATCAGTGAAGAAGTGGTAGTCGATGCTACAGATAAAGGAAACATTGCCCGCCTAATCAACCACTCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA19G17460.2 (Glycine max), 3'ss of exon 12
gtgagaatctttctctttctttgtgttctaaaaagaccaccaaaaacaaccaaaacttttacatttcctcatctttcttgagagcattaaaataaattgatattgttgtgtt--tgcagCTCTTTAAGATCAGTGAAGAAGTGGTAGTCGATGCTACAGATAAAGGAAACATTGCCCGCCTAATCAACCACTCG
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----------------ttcattattttcccactgtttccctatttaagttttctgctcttctaattttttgtatctcatga---cattaaattgtcctggtttctttatttttttgcagCTTTTCAAGATAAGTGAAGAAGTGGTAGTAGATGCCACTGATAAAGGAAATATAGCACGGCTAATTAACCATTCT
upper sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA06G13330.1 (Glycine max), 3'ss of exon 21
gtgagaatctttctctttctttgtgttctaaaaagaccaccaaaaacaaccaaaacttttacatttcctcatctttcttgagagcattaaaataaattgatattgttgtgtttgcagCTCTTTAAGATCAGTGAAGAAGTGGTAGTCGATGCTACAGATAAAGGAAACATTGCCCGCCTAATCAACCACTCG
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gtgagttaattcccctatgtctgccttttaatggcac----actggtcatcatattatttatgtcatgttatcaacctaaaatgcccta-------------ctcttgtctttgcagCTGTTTAAGATAAGTGAAGAAGTGGTGGTAGATGCCACTGATAAAGGGAATATAGCTCGGCTGATTAATCATTCT
upper sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA04G41500.1 (Glycine max), 3'ss of exon 21
gtgagaatctttctctttctttgtgttctaaaaagaccaccaaaaacaaccaaaacttttacatttcctcatctttcttgagagcattaaaataaattgatattgttgtgtttgcagCTCTTTAAGATCAGTGAAGAAGTGGTAGTCGATGCTACAGATAAAGGAAACATTGCCCGCCTAATCAACCACTCG
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gtgagttaattcctctatgtctgcctattaacagcac-actggtcatcat-attatttatatgttatgttatcaacctaaaatgcccta-------------ctcttgtctttgcagCTGTTTAAGATTAGTGAAGAAGTGGTGGTAGATGCCACTGATAAAGGGAATATAGCTCGGCTGATTAATCATTCT
upper sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: AT4G27910.1 (Arabidopsis thaliana), 3'ss of exon 20
gtgagaatctttctctttctttgtgttctaaaaagaccaccaaaaacaaccaaaacttttacatttcctcatctttcttgagagcattaaaataaattgatattgttgtgtttgcagCTCTTTAAGATCAGTGAAGAAGTGGTAGTCGATGCTACAGATAAAGGAAACATTGCCCGCCTAATCAACCACTCG
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----------------------gtgagttgaaaaagtttccat------tttatcttcacaaattgtctcttctctctctatctctcttaaccaaaagaaggat-ttatgtt-gcagCTTTTCAAGATCAGTGAAGAAGTAGTGGTTGATGCTACAGATAAAGGGAATATAGCTCGGCTCATCAATCATTCG
upper sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: AT5G53430.1 (Arabidopsis thaliana), 3'ss of exon 20
gtgagaatctttctctttctttgtgttctaaaaagaccaccaaaaacaaccaaaacttttacatttcctcatctttcttg---agagcattaaaa-taaattgatattgttgtgtttgcagCTCTTTAAGATCAGTGAAGAAGTGGTAGTCGATGCTACAGATAAAGGAAACATTGCCCGCCTAATCAACCACTCG
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----------------------------------gtgagttgaaagcgatatatcccttgtggcagtcttaacatgtgtgcatagagttctaaaactttattgttttaaatttgtt-gcagCTGTTTAAGATCAGTGAGGAAGTAGTGGTGGATGCGACAGAGAAAGGGAATATTGCTCGACTAATAAACCATTCGMapped 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|30133456|gb|CB918795.1|CB918795EST: TTGCAGATATGAGGGAGGTGCGCTACCGATTAGAAGGAAAAGACTGCTAT CTCTTTAAGATCAGTGAAGAAGTGGTAGTCGATGCTACAGATAAAGGAAAC
genomic: TTGCAGATATGAGGGAGGTGCGCTACCGATTAGAAGGAAAAGACTGCTATgtgagaatct ... gtgtttgcagCTCTTTAAGATCAGTGAAGAAGTGGTAGTCGATGCTACAGATAAAGGAAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttcctcatctttcttgagagcattaaaataaattgatattgttgtgtttgcagCTCTTTAAGATCAGTGAAGAAGTGGTAGTCGATGCTACAGATAAAGGAAACATTGCCCGCCTAATCAACCACTCG
aattgat putative branch site (score: 4)
attaaaataaattgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaatctttctctttctttgtgttctaaaaagaccaccaaaaacaaccaaaacttttacatttcctcatctttcttgagagcattaaaataaattgatattgttgtgtttgcagCTCTTTAAGATCAGTGAAGAAGTGGTAGTCGATGCTACAGATAAAGGAAACATTGCCCGCCTAATCAACCACTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA