Sequence
atgc intronic sequence ATGC exonic sequencegtgcatttttctcatgataactagttgtttaacactcctgaatttgtgaagttgacaattcctttatttagattatacatattaatcttcttttttttcatttaaatttcttttatctggtagAAACACCCTGGAAGTCTTTTGGAAGGATTTACTCAGACACAAGTGAGTACTCTGGCAGTCCGAGATAGGTTGTTGATTGCTGGAGGATTTCAGGGAGAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G12980.2 (Glycine max), 3'ss of exon 5
gtgcatttttctcatgataactagttgtttaacactcctgaatttgtgaagttgacaattcctttatttagattatacatattaatcttcttttttttcatttaaatttcttttatctggtagAAACACCCTGGAAGTCTTTTGGAAGGATTTACTCAGACACAAGTGAGTACTCTGGCAGTCCGAGATAGGTTGTTGATTGCTGGAGGATTTCAGGGAGAAC
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---------------------------------------gtaattatttt-ttcatggttattctgttgaaagcat-cacttggggaaaaaaacctgagatttcaaatatgtgttt---atagAAACATCCTGGAAGCCTCTTGGAAGGTTTTACTCAGACACAAATTAGTACACTGGCTGTACGAGATAACTTGTTGATTGCTGGAGGGTTTCAAGGAGAAC
upper sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G00740.3 (Glycine max), 3'ss of exon 5
gtgcatttttctcatgataactagttgtttaacactcctgaatttgtgaagttgacaattcctttatttagattatacatattaatcttcttttttttcatttaaatttcttttatctggtagAAACACCCTGGAAGTCTTTTGGAAGGATTTACTCAGACACAAGTGAGTACTCTGGCAGTCCGAGATAGGTTGTTGATTGCTGGAGGATTTCAGGGAGAAC
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----------------gtaataatttttgcaatgcttt---gttataaaaaatgatcacttaga-agttagaaaagacat-ctaagctt------------ttaaatgcctgttgg-taatagAAACATCCTGGAAGCCTTTTGGAAGGATTTACTCAGACACAGATTAGTACACTGGCTGTGCGGGATAAGTTGTTGATTGCTGGGGGGTTTCAAGGAGAAC
upper sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G02070.1 (Glycine max), 3'ss of exon 5
gtgcatttttctcatgataactagttgtttaacactcctgaatttgtgaagttgacaattcctttatttagattat-acatattaatcttcttttttttcatttaaatttct-tttatctggtagAAACACCCTGGAAGTCTTTTGGAAGGATTTACTCAGACACAAGTGAGTACTCTGGCAGTCCGAGATAGGTTGTTGATTGCTGGAGGATTTCAGGGAGAAC
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----------------------------------gtaataatttt------ttcatggttattctgttgaaagcatcacttgggaaaaaagcatctgagatttcaaatgtgtgttttgctaatagAAACATCCTGGAAGCCTCTTGGAAGGTTTTACTCAGACACAAATTAGTACACTGGCTGTACGAGATAACTTGTTGATTGCTGGAGGGTTTCAAGGAGAAC
upper sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G40060.1 (Glycine max), 3'ss of exon 5
gtgcatttttctcatgataactagttgtttaacactcctgaatttgtgaagttgacaattcctttatttagattatacatattaatcttcttttttttcatttaaatttcttttatctggtagAAACACCCTGGAAGTCTTTTGGAAGGATTTACTCAGACACAAGTGAGTACTCTGGCAGTCCGAGATAGGTTGTTGATTGCTGGAGGATTTCAGGGAGAAC
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--------------------gtaattttttttttttttttaatgctttgttataaaaaaggatc-acttagaaggtagaaa--agacatctaagcttt----taaatgcctgttgg-taacagAAACATCCTGGAAGCCTTTTGGAAGGATTTACTCAGACACAGATTAGTACACTGGCTGTGCGGGATAAGTTGTTGATTGCCGGGGGTTTTCAAGGAGAAC
upper sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G12970.1 (Glycine max), 3'ss of exon 1
gtgcatttttctcatgataactagttgtttaacactcctgaatttgtgaagttgacaattcctttatttagattatacatattaatcttcttttttttcatttaaatttcttttatctggtagAAACACCCTGGAAGTCTTTTGGAAGGATTTACTCAGACACAAGTGAGTACTCTGGCAGTCCGAGATAGGTTGTTGATTGCTGGAGGATTTCAGGGAGAAC-----------
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--------------------gtaattgttt----tttcagagcttttctattgaaagcatcacttataaagaaagaaaa----aatctcaaatttc-------aaatgtgttttg-ctaatagaaacatcctgtaagcctctagGAAGGTTTTACTCATACTCAAATTAGTACACTGGCTGTACGGGATAACTTGTTGATTGCTGGAGGGTTTCAAGGAGAACTTGTTTGCAAGMapped 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|161705531|gb|FC057533.1|FC057533EST: GCAAGAAGACTGAAGTTCTTAATGTTTCTGGGCATGTGGCACCTTGTGAG AAACACCCTGGAAGTCTTTTGGAAGGATTTACTCAGACACAAGTGAGTACT
genomic: GCAAGAAGACTGAAGTTCTTAATGTTTCTGGGCATGTGGCACCTTGTGAGgtgcattttt ... tatctggtagAAACACCCTGGAAGTCTTTTGGAAGGATTTACTCAGACACAAGTGAGTACT
EST:
gi|30138095|gb|CB923433.1|CB923433EST: GCAAGAAGACTGAAGTTCTTAATGTTTCTGGGCATGTGGCACCTTGTGAG AAACACCCTGGAAGTCTTTTGGAAGGATTTACTCAGACACAAGTGAGTACT
genomic: GCAAGAAGACTGAAGTTCTTAATGTTTCTGGGCATGTGGCACCTTGTGAGgtgcattttt ... tatctggtagAAACACCCTGGAAGTCTTTTGGAAGGATTTACTCAGACACAAGTGAGTACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagattatacatattaatcttcttttttttcatttaaatttcttttatctggtagAAACACCCTGGAAGTCTTTTGGAAGGATTTACTCAGACACAAGTGAGTACTCTGGCAGTCCGAGATAGGTTGTTGATTGCTGGAGGATTTCAGGGAGAAC
tattaat putative branch site (score: 2)
tcttcttttttttcat CT-rich tract
atattaatcttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcatttttctcatgataactagttgtttaacactcctgaatttgtgaagttgacaattcctttatttagattatacatattaatcttcttttttttcatttaaatttcttttatctggtagAAACACCCTGGAAGTCTTTTGGAAGGATTTACTCAGACACAAGTGAGTACTCTGGCAGTCCGAGATAGGTTGTTGATTGCTGGAGGATTTCAGGGAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA