Sequence
atgc intronic sequence ATGC exonic sequence...cactggaatagatggtaccacactgttttcctgcatcttgtagcatctacagtgctcaaaggcctgtttgctgacagcatgcatttgcatcttgaatcagGTACTGATTTTGGTATTGTTGGATCTTCCTGGACTTCTGTTTTTCTCTACATACACACTTCTTGTGCTATTTTGGGCAGAGATATATCACCAGGCAAGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0116g00020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g36790.3 (Oryza sativa), 3'ss of exon 2
---cactggaatagatggtaccacactgttttcctgcatcttgtagcatctacag--tgctcaaaggcctgtttgctgacagcatgcatttgcatcttgaatcagGTACTGATTTTGGTATTGTTGGATCTTCCTGGACTTCTGTTTTTCTCTACATACACACTTCTTGTGCTATTTTGGGCAGAGATATATCACCAGGCAAGTA
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cgacacctagctt--tgtttgtggact-tttcaatggatttcctaatttttaatgtttgtgttctagctggattgct--catcagaactctttatgtttaaatagGTGTATACTTTGGTGTTATTGGATCTTCCTGGTCTTCTATTTTTCTCGACATACACGCTACTTGTGCTGTTCTGGGCAGAAATATACCATCAG-------
upper sequence: Vv10s0116g00020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G01820.3 (Glycine max), 3'ss of exon 1
cactggaatagatggtaccacactgttttcctgcatcttgtagcatctac--agtgctca-aaggcctgtttgctgaca-gcatgcatttgcatcttg---aatcagGTACTGATTTTGGTATTGTTGGATCTTCCTGGACTTCTGTTTTTCTCTACATACACACTTCTTGTGCTATTTTGGGCAGAGATATATCACCAGGCAAGTA
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-----------------------------cctttgttgtgttgtatttgcctaatgattgtaaggttggtatgctcacatagatagagtggcttcttgtttgattaggtgttgatttcggtgctattagATCTTCCAGGACTACTTTTTTTCTCAACATATACACTTCTTGTCCTTTTCTGGGTAGAAATTTATCACCAG-------
upper sequence: Vv10s0116g00020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G01820.1 (Glycine max), 3'ss of exon 3
cactggaatagatggtaccacactgttttcctgcatcttgtagcatctacagtgctcaaaggcctgtttgctgaca-gcatgcatttgcatcttg---aatcagGTACTGATTTTGGTATTGTTGGATCTTCCTGGACTTCTGTTTTTCTCTACATACACACTTCTTGTGCTATTTTGGGCAGAGATATATCACCAGGCAAGTA
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------gttggttagttttgtacctttgttgtg----ttgtatttgcctaatgattgtaaggttggtatgctcacatagatagagtggcttcttgtttgattagGTGTTGATTTCGGTGCTATTAGATCTTCCAGGACTACTTTTTTTCTCAACATATACACTTCTTGTCCTTTTCTGGGTAGAAATTTATCACCAG-------
upper sequence: Vv10s0116g00020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G38920.2 (Glycine max), 3'ss of exon 3
cactggaatagatggtaccacac---tgttttcctgcatct-tgtagcatctacagtgctcaaaggcctgtttgctgacagcatgcatttgcatcttgaatcagGTACTGATTTTGGTATTGTTGGATCTTCCTGGACTTCTGTTTTTCTCTACATACACACTTCTTGTGCTATTTTGGGCAGAGATATATCACCAGGCAAGTA
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------gttagttagttttgcacctgtgttgtgttgtatttgcctaatgattgtaaggttggtatgctcac--aatgacatagtgtggcttcttgtttgattagGTGTTGATTTCGGTGCTATTAGATCTGCCAGGACTACTTTTTTTCTCAACATATACACTTCTTGTCCTTTTCTGGGCAGAAATTTATCACCAG-------
upper sequence: Vv10s0116g00020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G21790.1 (Arabidopsis thaliana), 3'ss of exon 3
----cactggaatagatggtaccacactgttttcctgcatcttgtagcatctacagtgctcaaaggc-----ctgtttgctgacagcatgcatttgcatcttgaatcagGTACTGATTTTGGTATTGTTGGATCTTCCTGGACTTCTGTTTTTCTCTACATACACACTTCTTGTGCTATTTTGGGCAGAGATATATCACCAGGCAAGTA
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gtgagagtgttctcaacttagttctggtttttgcatgtttgatttggaaatggtggattttgaaagctgcatctttttaagtatctaatgtttctgtgaggtaatgcagGCTCTTTGCTGGGTACTATTGGATCTTCCTGGCCTTCTCTTTTTCTCGGCATACACGCTGCTTGTGCTGTTCTGGGCAGAGATATATCACCAG-------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|161706415|gb|FC057579.1|FC057579EST: GGGCAATCGTGTTTGGGTTTCACAAGCAAGTCTTTGTTTTGCATCCCAAG GTACTGATTTTGGTATTGTTGGATCTTCCTGGACTTCTGTTTTTCTCTACA
genomic: GGGCAATCGTGTTTGGGTTTCACAAGCAAGTCTTTGTTTTGCATCCCAAGgtaagcttac ... cttgaatcagGTACTGATTTTGGTATTGTTGGATCTTCCTGGACTTCTGTTTTTCTCTACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctacagtgctcaaaggcctgtttgctgacagcatgcatttgcatcttgaatcagGTACTGATTTTGGTATTGTTGGATCTTCCTGGACTTCTGTTTTTCTCTACATACACACTTCTTGTGCTATTTTGGGCAGAGATATATCACCAGGCAAGTA
tgctgac putative branch site (score: 2)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cactggaatagatggtaccacactgttttcctgcatcttgtagcatctacagtgctcaaaggcctgtttgctgacagcatgcatttgcatcttgaatcagGTACTGATTTTGGTATTGTTGGATCTTCCTGGACTTCTGTTTTTCTCTACATACACACTTCTTGTGCTATTTTGGGCAGAGATATATCACCAGGCAAGTA
cactgga
- - - - tagatgg
- - - - - - - - -ccacact
- - - - - - - - - - - - - - tcctgca
- - - - - - - - - - - - - - - - - - - - - gcatcta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgca