Sequence
atgc intronic sequence ATGC exonic sequence...actagacttacattagcattatggatacgtagttctatttaagttatttggtttatttccatttggttttaaaccttttatttttgacattatactgcagCTTGATGAGTGGTGGGAGCAACCAGCATCAACCGTTGTTGACTGGGTTACAGTTGATGGGCAAAATGTTGCTGCTTGGCATAATCACGTGAAGCAGCTGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0083g00990.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G27740.1 (Glycine max), 3'ss of exon 9
actagacttacattagcattatggatacgtagttctatttaagttatttggtttatttccatttggttttaaaccttttatttt----tgaca--ttatactgcagCTTGATGAGTGGTGGGAGCAACCAGCATCAACCGTTGTTGACTGGGTTACAGTTGATGGGCAAAATGTTGCTGCTTGGCATAATCACGTGAAGCAGCTGC
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-tcaaagttgc-tta--atttggtatttcatgatctgggtggtagacttttcacgttcctataaaatttcca--tttctattataaaatggtaacctcttctgcagCTTGATGAGTGGTGGGAGCAGCCAGCATCGACAGTTGTTGACTGGGTAACAGTGGATGGGCAAAATGTAACTGCCTGGCATAATCATGTGAAACAGCTTC
upper sequence: Vv14s0083g00990.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA18G50960.1 (Glycine max), 3'ss of exon 9
actagacttacattagcattatg-gatacgtagttctatttaagttatttggtttatttccatttggttt-taaaccttttatt---tttgacattatactgcagCTTGATGAGTGGTGGGAGCAACCAGCATCAACCGTTGTTGACTGGGTTACAGTTGATGGGCAAAATGTTGCTGCTTGGCATAATCACGTGAAGCAGCTGC
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----tcctcaaagttgcttaatttgatatttcat-ctggctggtagatttttcacgttcctataaaatttctatttctattattaaattgtaacctcttctgcagCTTGATGAGTGGTGGGAGCAGCCAGCATCGACAGTTGTTGACTGGGTAACAGTGGATGGGCAAAATGTAACTGCCTGGCATAATCATGTGAAACAGCTTC
upper sequence: Vv14s0083g00990.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT5G38880.1 (Arabidopsis thaliana), 3'ss of exon 9
actagacttacattagcattatggatacgtagttctatttaagttatttggtttatttcca-tttggttttaaaccttttatttttgacattatactgcagCTTGATGAGTGGTGGGAGCAACCAGCATCAACCGTTGTTGACTGGGTTACAGTTGATGGGCAAAATGTTGCTGCTTGGCATAATCACGTGAAGCAGCTGC
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-gcaaataaagtttacggttctagttctttttctattcttcactacctttccttacttcaagcttaataccattttttgtttgtttgtgtttcgaatgcagCTTGATGAATGGTGGGAACAACCTGCATCAACAGTTGTGGATTGGGTCACTGTAGATGGTCAAAGTGTTGCAGCTTGGCAAAACCATGTCAAACAGCTTC
upper sequence: Vv14s0083g00990.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: PP1S58_171V6.1 (Physcomitrella patens), 3'ss of exon 9
-----------------------------actagactt----acattagcattatggatacgt-agttctatttaagttattt---ggtttatttccatttggttttaaacc---ttttatttttgacattatac-tgcagCTTGATGAGTGGTGGGAGCAACCAGCATCAACCGTTGTTGACTGGGTTACAGTTGATGGGCAAAATGTTGCTGCTTGGCATAATCACGTGAAGCAGCTGC
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gtaagtgtatgaaatttcctacgttacagttgagaattgaggacgttttttttggggatatattggttctgtgatacacaccccaaaagtcatttccattattttctgagtcgcattcgcttcgtggtgttatgcatgcagGTTGATGAGTGGTGGGAACAGCCAGCAGCTACTGTGGTTGACTGGGTCTCTGTTGATGGCCAGAACGTTGGTGCTTGGTTGGCCCTTGTGAAACAACTTC
upper sequence: Vv14s0083g00990.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: PP1S189_50V6.2 (Physcomitrella patens), 3'ss of exon 9
--------------------------actag--acttacattagcattatggatacgtagttctatttaagttatttggtttatttccatttg-gttttaaaccttttatttttgacatt---atactg-cagCTTGATGAGTGGTGGGAGCAACCAGCATCAACCGTTGTTGACTGGGTTACAGTTGATGGGCAAAATGTTGCTGCTTGGCATAATCACGTGAAGCAGCTGC
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gtaagtttcctccgccgcttcaattcattggcaattggcccattcagtaacagcattagagctcgtaagaagtatttaagattttttctctcgtgcgaaaagtgtctcatatatggctgtttgatactgacagGTCGAAGAGTGGTGGGAGCAGCCAGCATCTACTGCTGTTGATTGGATTTTAGTGGATGGACAAAATGTTGCTGCTTGGCTTGCTCATGTGAAACAACTACMapped 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|30302746|gb|CB979540.1|CB979540EST: TTTTGAATGCTCAAAAAAGTCTGGAAGATTGCAAATATGTTAGGGGTTTG CTTGATGAGTGGT
genomic: TTTTGAATGCTCAAAAAAGTCTGGAAGATTGCAAATATGTTAGGGGTTTGgtaagtagta ... tatactgcagCTTGATGAGTGGT
EST:
gi|30302813|gb|CB979607.1|CB979607EST: TTTTGAATGCTCAAAAAAGTCTGGAAGATTGCAAATATGTTAGGGGTTTG CTTGATGAGTGGTGGGAGCAACCAGCATCAACCGTTGTTGACTGGGTTACA
genomic: TTTTGAATGCTCAAAAAAGTCTGGAAGATTGCAAATATGTTAGGGGTTTGgtaagtagta ... tatactgcagCTTGATGAGTGGTGGGAGCAACCAGCATCAACCGTTGTTGACTGGGTTACA
EST:
gi|110396492|gb|EC962181.1|EC962181EST: TTTTGAATGCTCAAAAAAGTCTGGAAGATTGCAAATATGTTAGGGGTTTG CTTGATGAGTGGTGGGAGCAACCAGCATCAACCGTTGTTGACTGGGTTACA
genomic: TTTTGAATGCTCAAAAAAGTCTGGAAGATTGCAAATATGTTAGGGGTTTGgtaagtagta ... tatactgcagCTTGATGAGTGGTGGGAGCAACCAGCATCAACCGTTGTTGACTGGGTTACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttggtttatttccatttggttttaaaccttttatttttgacattatactgcagCTTGATGAGTGGTGGGAGCAACCAGCATCAACCGTTGTTGACTGGGTTACAGTTGATGGGCAAAATGTTGCTGCTTGGCATAATCACGTGAAGCAGCTGC
ttttgac putative branch site (score: 3)
ttttaaaccttttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actagacttacattagcattatggatacgtagttctatttaagttatttggtttatttccatttggttttaaaccttttatttttgacattatactgcagCTTGATGAGTGGTGGGAGCAACCAGCATCAACCGTTGTTGACTGGGTTACAGTTGATGGGCAAAATGTTGCTGCTTGGCATAATCACGTGAAGCAGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatttg