Sequence
atgc intronic sequence ATGC exonic sequence...tttaacaatggcctcccattaagtatgatgtctatgaattgtacactctttattttctccatttatttctacttaattcttttttttttttaaattgcagCCAGACAAGGTCAAATTTGAGCTTAGGTTGGGGCAAAGCAAACCCATTTATAATGCATTTAAAGCTATTCAAGAATCTCCTGAGTGGCAAACACTGAGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0211g00060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G33490.1 (Glycine max), 3'ss of exon 2
tttaacaatggcctcccattaagtatgatgtctatgaattgtacactctttattttctccatttatttctacttaattctt--ttttttttttaaattgcagCCAGACAAGGTCAAATTTGAGCTTAGGTTGGGGCAAAGCAAACCCATTTATAATGCATTTAAAGCTATTCAAGAATCTCCTGAGTGGCAAACACTGAGTG
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--tgggggggggtgtatatatcttgtgtgtgtttcggattatgaggtcatcatcagctttggtgtgctaagaaggattagtggataacttttttgtttgcagGCAGAAAAAGTTAAGTTTCAGCTTAGACTGGGTCAAAGCAAACCTATTTATAATGCATTCAAAGCCATTCAGGAGTCTCCTGATTGGCAGACACTCAGTG
upper sequence: Vv00s0211g00060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G02480.1 (Glycine max), 3'ss of exon 2
------tttaacaatggcctcccattaagtatgatgtctatgaattgtacactctttattttctccatttatttctacttaattcttttttttttttaaattgcagCCAGACAAGGTCAAATTTGAGCTTAGGTTGGGGCAAAGCAAACCCATTTATAATGCATTTAAAGCTATTCAAGAATCTCCTGAGTGGCAAACACTGAGTG
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gttttttttgggggtggggtat-atcttgtgtg-tgtttctg--ttttaggtcgtcacctttgatgcgctaacaaggattagtggattactttttt--gtttgcagGCAGAAAAAGTTAAGTTTCAGCTTAGACTGGGTCAAAGCAAACCTATTTATAATGCGTTCAAAGCCATTCAGGAGTCTCCTAATTGGCAGACACTTAGTG
upper sequence: Vv00s0211g00060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G10540.1 (Arabidopsis thaliana), 3'ss of exon 2
---tttaa-caatggcctcccattaagtatgatgtctatgaattgtacactctttattttctccatttatttctacttaattcttttttttttttaaattgcagCCAGACAAGGTCAAATTTGAGCTTAGGTTGGGGCAAAGCAAACCCATTTATAATGCATTTAAAGCTATTCAAGAATCTCCTGAGTGGCAAACACTGAGTG
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ggattcagtcaaagggagctc--taagtttt-tgtttgtttattcagtggattaggattcgttttcttgttttc-ctaacaatactttcatctacactctacagCCGGAGAAGGTGAAGTTCCAGCTCAGGTTGGGACAGAGCAAACCCATTTACAATGCATTTAAGGCTATTCGAGAATCTCCAGACTGGAATTCATTGAGCG
upper sequence: Vv00s0211g00060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G65620.1 (Arabidopsis thaliana), 3'ss of exon 2
-tttaacaatggcctcccattaagtatgatgtctatgaattgtacactctttattttctccatttatttctacttaattcttttttttttttaaattgcagCCAGACAAGGTCAAATTTGAGCTTAGGTTGGGGCAAAGCAAACCCATTTATAATGCATTTAAAGCTATTCAAGAATCTCCTGAGTGGCAAACACTGAGTG
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gttgaataactaatcatgctt--gttttttgtgtgttagttcagtgagttgggggatttatatcttgttttacttaactacattggtcttat-----gcagCCAGAGAAAGTGAAGTTCCAGCTCAGGTTGGGGCAAAGCAAGCCTATTTACAATGCCTTTAAAGCTATTCGTGAATCTCCTGATTGGTCATCGCTCAGTGMapped 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|110723244|gb|EE100338.1|EE100338EST: AGTCTGTCAAGGATTCGTCTGAGCTTCGTTCTGCAATTGAGGAAGTCCAG CCAGACAAGGTCAAATTTGAGCTTAGGTTGGGGCAAAGCAAACCCATTTAT
genomic: AGTCTGTCAAGGATTCGTCTGAGCTTCGTTCTGCAATTGAGGAAGTCCAGgtaaaacttt ... taaattgcagCCAGACAAGGTCAAATTTGAGCTTAGGTTGGGGCAAAGCAAACCCATTTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctttattttctccatttatttctacttaattcttttttttttttaaattgcagCCAGACAAGGTCAAATTTGAGCTTAGGTTGGGGCAAAGCAAACCCATTTATAATGCATTTAAAGCTATTCAAGAATCTCCTGAGTGGCAAACACTGAGTG
acttaat putative branch site (score: 4)
ttttctccatttattt CT-rich tract
tccatttatttctact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttaacaatggcctcccattaagtatgatgtctatgaattgtacactctttattttctccatttatttctacttaattcttttttttttttaaattgcagCCAGACAAGGTCAAATTTGAGCTTAGGTTGGGGCAAAGCAAACCCATTTATAATGCATTTAAAGCTATTCAAGAATCTCCTGAGTGGCAAACACTGAGTG
- - - - - gcctccc
- - - - - - - - - - - - - - - -ctatgaa