Sequence
atgc intronic sequence ATGC exonic sequence...ttgtctcagtccatttccaagtaattgggtagtagttatttatttacttattttttaaatcatcgagttcagcttatagaatatatattttaatcttcagAAACAATTATTTCATGGAGAGATCCTGAATATTCTACTGAATTAGCTCTTAGCTTTCAAGAGACTACCGGATGCTCTTTCATATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0077g01200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G03570.1 (Glycine max), 3'ss of exon 3
-------------------ttgtctcagtccatttccaagtaattgggtagtagttatttatttac--ttattttttaaat----catcgagttcagcttatagaatatatattttaatcttcagAAACAATTATTTCATGGAGAGATCCTGAATATTCTACTGAATTAGCTCTTAGCTTTCAAGAGACTACCGGATGCTCTTTCATATG
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gtagttggtagcttttatctttccttcctctctttctcaataaa-gagctgttgtctttcatttacgcttgaaatataaatgggtcatggtgtttatcagtttgatggattcttttgttcttcagATACAATCATCTCATGGAGAGATCCAGAATATGCTACTGAACTGGCACTTAGCTTTCAAGAGCCTAGCGGCTGCTCTTACATATG
upper sequence: Vv05s0077g01200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G37040.1 (Glycine max), 3'ss of exon 1
-------------------ttgtctcagtccatttccaagtaattgggtagtagttatttatttacttattttttaaa----tcatcgagttcagcttatagaatatatattttaatcttcagAAACAATTATTTCATGGAGAGATCCTGAATATTCTACTGAATTAGCTCTTAGCTTTCAAGAGACTACCGGATGCTCTTTCATATG
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gtagttggtagcttttatccttcctccctctctttttcaataaa-gggaatttgtctttcatttatgcttgaataaaaggggtcatggtgtttatcagtttgatggatgcttttgttcttcagATACAATCATCTCATGGAGAGATCCAGAATATGCTACAGAACTGGCACTTAGCTTTCAAGAGCCTAGTGGCTGCTCTTACATATG
upper sequence: Vv05s0077g01200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G04260.1 (Glycine max), 3'ss of exon 3
--------ttgt-ctcagtccatttccaagtaattgggtagtagttatttatttacttattttttaaatcatcgagtt-cagctta-tagaatata-tattttaatcttcagAAACAATTATTTCATGGAGAGATCCTGAATATTCTACTGAATTAGCTCTTAGCTTTCAAGAGACTACCGGATGCTCTTTCATATG
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gtaatcgatagcattttttacacttaatattgacaagtccactatttgtccttgaagcatatcagggttcattttgtttcagtttaatggtagacactattttgtcatgcagATACAATTATTTCATGGAGAGATCCAGAATATGCTGCAGAACTGGCTCTTAGCTTTCAAGAACCTGGTGGTTGCTCTTACATTTG
upper sequence: Vv05s0077g01200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G15270.1 (Glycine max), 3'ss of exon 2
-----ttgtctcagtccatttccaagtaattgggtagta-gttatttat---ttacttattttttaaatcatcgagtt-cagctta-tagaatata-tattttaatcttcagAAACAATTATTTCATGGAGAGATCCTGAATATTCTACTGAATTAGCTCTTAGCTTTCAAGAGACTACCGGATGCTCTTTCATATG
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gtaatccgtagcattttatacttttaatattgactagtccactatttgtccctgaagcatatcagggatcattttgtttcagtttaatggtagacactattttgtcatgcagATACAATTATCTCATGGAGAGATCCAGAATATGCTGCAGAACTGGCTCTTAGCTTTCAAGAATCTGGTGGTTGCTCTTACATATGMapped 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|37188632|gb|CF607981.1|CF607981EST: ACTACTTTTGCATCGTATCAGCTCAGAGGATATATATCGAAAACAAGAAG AAACAATTATTTCATGGAGAGATCCTGAATATTCTACTGAATTAGCTCTTA
genomic: ACTACTTTTGCATCGTATCAGCTCAGAGGATATATATCGAAAACAAGAAGgtattcttat ... taatcttcagAAACAATTATTTCATGGAGAGATCCTGAATATTCTACTGAATTAGCTCTTA
EST:
gi|161712627|gb|FC061950.1|FC061950EST: ACTACTTTTGCATCGTATCAGCTCAGAGGATATATATCGAAAACAAGAAG AAACAATTATTTCATGGAGAGATCCTGAATATTCTACTGAATTAGCTCTTA
genomic: ACTACTTTTGCATCGTATCAGCTCAGAGGATATATATCGAAAACAAGAAGgtattcttat ... taatcttcagAAACAATTATTTCATGGAGAGATCCTGAATATTCTACTGAATTAGCTCTTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttattttttaaatcatcgagttcagcttatagaatatatattttaatcttcagAAACAATTATTTCATGGAGAGATCCTGAATATTCTACTGAATTAGCTCTTAGCTTTCAAGAGACTACCGGATGCTCTTTCATATG
ttttaat putative branch site (score: 3)
tcttc CT-rich tract
ttatagaatatatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtctcagtccatttccaagtaattgggtagtagttatttatttacttattttttaaatcatcgagttcagcttatagaatatatattttaatcttcagAAACAATTATTTCATGGAGAGATCCTGAATATTCTACTGAATTAGCTCTTAGCTTTCAAGAGACTACCGGATGCTCTTTCATATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
-tgtctca
- - - - - ccatttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aaatcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcagct