Sequence
atgc intronic sequence ATGC exonic sequence...cagattggatccgcccaagttatagttcaattattcctattttaagcttatttagttaaaatgttggccttgtaacttatccttctattccaatatgcagGAGTGTGGCCCTCGGTTCACGCTGAAGCTAATAAATTTACAGCATGGAACATTTGATACCAAAGGCGGGGAATATGAGTGGGTTCACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0036g01520.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G05330.1 (Glycine max), 3'ss of exon 9
--cagattggatccgcccaagt-tatagttcaattattcctatt---ttaagcttatttagttaaaatgttggccttgtaacttatccttctattccaatatgcagGAGTGTGGCCCTCGGTTCACGCTGAAGCTAATAAATTTACAGCATGGAACATTTGATACCAAAGGCGGGGAATATGAGTGGGTTCACAAG
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aatgtttttgatattttcaagaatttaaattcttcaagctgattcgttcaagttttaatcttattaataatggtctccaaacttgcctctgtaa------atgcagGAATGTGGTCCTCGTTTCACATTAAAATTGATTAGCCTGCAGCATGGAACATTTGACACCAAGGGTGGGGAATATGAGTGGGTTCACAAG
upper sequence: Vv14s0036g01520.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA16G01880.1 (Glycine max), 3'ss of exon 9
cagattggatccgcccaagttatagttcaattattcctattttaagcttatttagttaaaa--tgttggccttgtaacttatccttctattccaatatgcagGAGTGTGGCCCTCGGTTCACGCTGAAGCTAATAAATTTACAGCATGGAACATTTGATACCAAAGGCGGGGAATATGAGTGGGTTCACAAG
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caagctgattcgatcaaagttttgtat--atctgtattgttcagtttttatctggttaatggtctccaaacttgcctctgtaacaacttcacttaaatgcagGAATGTGGCCCTCGTTTCACATTAAAGTTGATTAGCCTGCAGCATGGAACATTTGACACTAAGGGTGGGGAATATGAGTGGGTTCACAAG
upper sequence: Vv14s0036g01520.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT4G01560.1 (Arabidopsis thaliana), 3'ss of exon 9
cagattggatccgcccaagttatagttcaattattcctattttaagcttatttagttaa-aatgttggccttgtaacttatccttctattcca-atatgcagGAGTGTGGCCCTCGGTTCACGCTGAAGCTAATAAATTTACAGCATGGAACATTTGATACCAAAGGCGGGGAATATGAGTGGGTTCACAAG
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-------------------------gtcagttttgaccatgttgaa-tcaaaaagtaatcaacattatcaatgtt-tgtatcattaaactttggatttttagGAATGCGGTCCTCGATTCACGCTTAAGCTAGTTACTCTACAGCATGGAACTTTTGACACCAAAGGTGGAGAATTTGAATGGGTTCATAAGMapped 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|110362343|gb|EC925871.1|EC925871EST: ATGCCAAGGGTGAGAAAAGCTCTCAAGGAAAAGTGGTTGCCCGCCTTCAG GAGTGTGGCCCTCGGTTCACGCTGAAGCTAATAAATTTACAGCATGGAACA
genomic: ATGCCAAGGGTGAGAAAAGCTCTCAAGGAAAAGTGGTTGCCCGCCTTCAGgttcatgtca ... caatatgcagGAGTGTGGCCCTCGGTTCACGCTGAAGCTAATAAATTTACAGCATGGAACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcttatttagttaaaatgttggccttgtaacttatccttctattccaatatgcagGAGTGTGGCCCTCGGTTCACGCTGAAGCTAATAAATTTACAGCATGGAACATTTGATACCAAAGGCGGGGAATATGAGTGGGTTCACAAG
ttgtaac putative branch site (score: 2)
cttatccttctattcc CT-rich tract
tttagttaaaatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagattggatccgcccaagttatagttcaattattcctattttaagcttatttagttaaaatgttggccttgtaacttatccttctattccaatatgcagGAGTGTGGCCCTCGGTTCACGCTGAAGCTAATAAATTTACAGCATGGAACATTTGATACCAAAGGCGGGGAATATGAGTGGGTTCACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - ccgccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - taaaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttgta