Sequence
atgc intronic sequence ATGC exonic sequence...ttttgtaatatatgttctccagcttttgtaatatatagcagaaatgatgacttgggtgttaatgttttcttttctctgaccaagtttctgtaatatatagCAGAAATGGCGACATGTATGCTGGAGAATATTTTGCTGACAAGATGCATGGTTTTGGGGTATACCGATTTGCAAATGGACATCGATACGAGGGAGCCTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g00090.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G15940.1 (Glycine max), 3'ss of exon 1
---ttttgtaatatatgttctccagcttttgtaatatatagcagaaatgatgacttgggtgttaatgttttcttttctctgaccaagtttctgtaatatatagCAGAAATGGCGACATGTATGCTGGAGAATATTTTGCTGACAAGATGCATGGTTTTGGGGTATACCGATTTGCAAATGGACATCGATACGAGGGAGCCTGG---
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ttacaaaagaacaattgtgacgggaaggtttgattttttaacaaatacgaaaagtatctcttttgagtgggtctttac---acttattttatgtatcct---gcagAAATGGGGACATATATGCTGGTGAATATTTTGCAGACAAGATGCATGGTTTTGGAGTGTATCAATTTCAGAATGGTCATCGGTATGAGGGGGCATGGCAT
upper sequence: Vv02s0012g00090.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G05640.1 (Glycine max), 3'ss of exon 3
ttttgtaatatatgttctccagcttttgtaatatatagcagaaatgatgacttgggtgttaatgttttcttttctctgaccaagtttctgtaatatatagCAGAAATGGCGACATGTATGCTGGAGAATATTTTGCTGACAAGATGCATGGTTTTGGGGTATACCGATTTGCAAATGGACATCGATACGAGGGAGCCTGG
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-attacaaaaga-acaattgtgatgggaaggtttatttttgaacaaatacaaaaagtatctcttttgagtgggtctttacaattattttatg-tatactgcagAAATGGGGACATATATGCTGGTGAATATTTTGCAGACAAGATGCATGGTTTTGGAGT----------------------------------------
upper sequence: Vv02s0012g00090.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G35170.1 (Arabidopsis thaliana), 3'ss of exon 1
-ttttgtaatatatgttctccagcttttgtaatata-ta-gcagaaatgatgacttgggtgttaatgttttcttttctctgaccaagtttctgtaatatatagCAGAAATGGCGACATGTATGCTGGAGAATATTTTGCTGACAAGATGCATGGTTTTGGGGTATACCGATTTGCAAATGGACATCGATACGAGGGAGCCTGG---
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tgatcttaagcaattgcatgaagcactggtggtccagtatgctttagcggtaccatggctttaaaactacatttaacttggagtta--tgctgc----tgttgcagAAATGGTGATGCGTATGCTGGGGAGTATTTTGCAGACAAGATGCATGGTTTTGGAGTGTATCACTTTGCGAACGGGCATAAGTATGAAGGAGCTTGGCAC
upper sequence: Vv02s0012g00090.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G17080.1 (Arabidopsis thaliana), 3'ss of exon 1
ttttgtaatatatgttctccagcttttgtaatatatagcagaaatga-tgacttgggtgttaatgttttcttttctctgaccaagtttctgtaatatatagCAGAAATGGCGACATGTATGCTGGAGAATATTTTGCTGACAAGATGCATGGTTTTGGGGTATACCGATTTGCAAATGGACATCGATACGAGGGAGCCTGG---
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-tttgttggacttgagcatgga--tctaaaaaaaattgcatcaatcactgtcttctcttcttaagtgatatcta-tctgacttgaagccacatctctcttgtagAAATGGTGATACATATGCTGGGGAGTATTTTGCAGACAGGATGCATGGTTTTGGAGTGTATCAATTTGGAAACGGGCATCGGTATGAAGGAGCCTGGCATMapped 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|110719219|gb|EE096948.1|EE096948EST: GGGGAGTTCAAGTGGGGTGTCAAACATGGGTTTGGTCATTACCATTT--- CAGAAATGGCGACATGTATGCTGGAGAATATTTTGCTGACAAGATGCATGG
genomic: GGGGAGTTCAAGTGGGGTGTCAAACATGGGTTTGGTCATTACCATTTCAGgtaaatttta ... taatatatagCAGAAATGGCGACATGTATGCTGGAGAATATTTTGCTGACAAGATGCATGG
EST:
gi|37183599|gb|CF602953.1|CF602953EST: GGGGAGTTCAAGTGGGGTGTCAAACATGGGTTTGGTCATTACCATTTCAG -A-AA-TGGCGACATGTATGCTGGAGAATATTTTGCTGACAAGATGCATGG
genomic: GGGGAGTTCAAGTGGGGTGTCAAACATGGGTTTGGTCATTACCATTTCAGgtaaatttta ... taatatatagCAGAAATGGCGACATGTATGCTGGAGAATATTTTGCTGACAAGATGCATGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatgacttgggtgttaatgttttcttttctctgaccaagtttctgtaatatatagCAGAAATGGCGACATGTATGCTGGAGAATATTTTGCTGACAAGATGCATGGTTTTGGGGTATACCGATTTGCAAATGGACATCGATACGAGGGAGCCTGG
ctctgac putative branch site (score: 3)
tttctgt putative PPT
ttaatgttttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttgtaatatatgttctccagcttttgtaatatatagcagaaatgatgacttgggtgttaatgttttcttttctctgaccaagtttctgtaatatatagCAGAAATGGCGACATGTATGCTGGAGAATATTTTGCTGACAAGATGCATGGTTTTGGGGTATACCGATTTGCAAATGGACATCGATACGAGGGAGCCTGG
- - - - - - - - ctccagc
- - - - - - - - - - - - - - - - - - - - gaaatga
- - - - - - - - - - - - - - - - - - - - - - - -tgacttg