Sequence
atgc intronic sequence ATGC exonic sequence...aaagctttaaatgattcgatttttatagcattctgtccatgattgaaatcatttcattcttcatctatggttgttgatgtcttctctatgatctttacagCCGTGAAAGATTTGGTGAGGTCCATGCAAAGACGTGGTGGGAAGAGAATCGAGAGAGAATACAAGCTCAATACCTCTAAATTTAGATTTTTCACAAAACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0033g00590.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G08070.1 (Glycine max), 3'ss of exon 5
-aaagctttaaatgattcgatttttatagcattctgtccatgattgaaatcatttcattcttcatctatggttgttgatgtcttctctat-gatctttacagCCGTGAAAGATTTGGTGAGGTCCATGCAAAGACGTGGTGGGAAGAGAATCGAGAGAGAATACAAGCTCAATACCTCTAAATTTAGATTTTTCACAAAACT
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tgggtcatcacccattttgaagggtgtacaaaagacttttgtgtagactttagatgcatgttaggttttga--gttgacactttctctattaatgttttcagCCGGGAAAGATTTGGGGAGGTGAATGCAAAAACTTGGTGGGAAGAGAACAGAGAGAGAATACAAGCTCAATATCTTTGAACTTTGAAGTCACATTTTCCT
upper sequence: Vv02s0033g00590.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G17590.1 (Glycine max), 3'ss of exon 3
---aaagctttaaatgattcgattttta--tagcattctgtccatgattgaaatcatttcattcttcatctatggttgttgatgtcttctctatgatctttacagCCGTGAAAGATTTGGTGAGGTCCATGCAAAGACGTGGTGGGAAGAGAATCGAGAGAGAATACAAGCTCAATACCTCTAAATTTAGATTTTTCACAAAACT
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tattaggttttgaatgaacactttctcaactaatatt-tgtttagactttatatgcttat----tagattttgaattaacactttctcaactcttatgtttgcagCCGGGAAAGATTTGGGGAGGTGAATGCAAAAACTTGGTGGGAAGAGAACAGAGAGAGAATCCAAGCTCAATATCTTTGAACTTTGAAGTCAAATTTTTCT
upper sequence: Vv02s0033g00590.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G34600.1 (Glycine max), 3'ss of exon 5
aaagctttaaatgattcgatttttatagcattctgtccatgattgaaatcatttcattcttcatctatggttgttgat------gtcttctctatgatctttacagCCGTGAAAGATTTGGTGAGGTCCATGCAAAGACGTGGTGGGAAGAGAATCGAGAGAGAATACAAGCTCAATACCTCTAAATT--TAGATTTTTCACAAAACT
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------ccaaatttcataaaagttaaaattttcatctagagagtaagctaactttatttttagaaggttattactaatttgattgttttatcaactctgtctgcagCCGGGAGAGATTTGGGGAGGGACATGCAAAGAAATGGTGGGAAGACAACAGAGAAAGAATACAAGCTCAATATCTTTGAAGTGTTGTGGCATTGAAGAGA--
upper sequence: Vv02s0033g00590.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G35180.1 (Glycine max), 3'ss of exon 3
-----aaagctttaaatgattcgatttttatagcattctgtccatgattgaaatcatttcattcttcatctatggttgttgatgtcttctctatgatctttacagCCGTGAAAGATTTGGTGAGGTCCATGCAAAGACGTGGTGGGAAGAGAATCGAGAGAGAATACAAGCTCAATACCTCTAAATT--TAGATTTTTCACAAAACT
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ttcattagaattaaaat--tttcatctagagagtaagttaacttt-atggatagaagattattagtaggttttgatt--tgactgtttatcaactctgtctgcagCCGGGAGAGATTTGGGGAGGGACATGCAAAGAAATGGTGGGAAGACAACAGAGAAAGAATACAAGCTCAATATCTTTGAAGTGTTGTGGCATTGAAGAGA--
upper sequence: Vv02s0033g00590.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G31880.1 (Arabidopsis thaliana), 3'ss of exon 6
-------aaagctttaaatgattcgatttttatagcattctgtccatgattgaaatcatt--tcat-tcttcatctatggttgttgatgtcttctctatgatctttacagCCGTGAAAGATTTGGTGAGGTCCATGCAAAGACGTGGTGGGAAGAGAATCGAGAGAGAATACAAGCTCAATACCTCTAAATTTA-GATTTTTCACAAAACT
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gtataacaaaacgtctaaaactaagcatttgcta--atcatatacattttgaaagttggtaatcataccgtgactaaccggaatctatggttttgtggtttaatcaacagCCGGGAACGGTTTGGGGAAGTGCATGCAAAGACATGGTGGGAGCAGAACAGAGAGAGAATACAAACACAGTACCTCTAAGCAAACGAAATATTATGAGTA-Mapped 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|110378301|gb|EC943425.1|EC943425EST: ATCAGACAGTTGGCTGATGGCACAAGGGAGCTTCGGCGCGTCAGATTCAG CCGTGAAAGATTTGGTGAGGTCCATGCAAAGACGTGGTGGGAAGAGAATCG
genomic: ATCAGACAGTTGGCTGATGGCACAAGGGAGCTTCGGCGCGTCAGATTCAGgtaaccaaaa ... atctttacagCCGTGAAAGATTTGGTGAGGTCCATGCAAAGACGTGGTGGGAAGAGAATCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatcatttcattcttcatctatggttgttgatgtcttctctatgatctttacagCCGTGAAAGATTTGGTGAGGTCCATGCAAAGACGTGGTGGGAAGAGAATCGAGAGAGAATACAAGCTCAATACCTCTAAATTTAGATTTTTCACAAAACT
tgttgat putative branch site (score: 4)
tctttac putative PPT
atttcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaagctttaaatgattcgatttttatagcattctgtccatgattgaaatcatttcattcttcatctatggttgttgatgtcttctctatgatctttacagCCGTGAAAGATTTGGTGAGGTCCATGCAAAGACGTGGTGGGAAGAGAATCGAGAGAGAATACAAGCTCAATACCTCTAAATTTAGATTTTTCACAAAACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - ctgtcca
- - - - - - - - - - - - - - - - - - - - - - gaaatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctatg