Sequence
atgc intronic sequence ATGC exonic sequence...tttactagtgctgtcttgccaaactttctttttgtttaagttaaattcttgatcattatttatttcttgagtaatttatttcaagttggtaacccttcagGGAGAGCTGACATATGGAAAGATTGGAGAATGGCGTTTTGACAAGAGATCATTTCTTAGTGGCCCTCCACCAAAGAATCTCACCCTACCTCCTCCTGGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g03360.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA14G03930.1 (Glycine max), 3'ss of exon 6
----------------------------------------------------------------------tttactagtgctgtcttgccaaactttctttttgtttaagtta-aattcttg-atcattatttatttcttgagtaatttatttcaagttggtaaccc--ttcagGGAGAGCTGACATATGGAAAGATTGGAGAATGGCGTTTTGACAAGAGATCATTTCTTAGTGGCCCTCCACCAAAGAATCTCACCCTACCTCCTCCTGGTG
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gtgagttcattctccttaatgcaagtatgatgtgaaagtaaggtagagaaactatatttctgtggttagtattacttttgcagtttggcttatgcctgtccatgtataaaatgtgagtcttgcatgcttagttgttgtatgcctaagttatctactccttattacctcatccagGGGGAACTGACATATGGGAAGATTGGAGAATGGCGTTTTGACAAGAGATATCATCTTTTGGGTCCTCCACCCAAAAACCTCCCCTTACCGCCTCCAGGAG
upper sequence: Vv06s0009g03360.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G44810.1 (Glycine max), 3'ss of exon 8
----------------------------------------------------------------------tttactagtgctgtcttgccaaactttctttttgtttaagtta-aattcttg-atcattatttatttcttgagtaatttatttcaagttggtaaccc--ttcagGGAGAGCTGACATATGGAAAGATTGGAGAATGGCGTTTTGACAAGAGATCATTTCTTAGTGGCCCTCCACCAAAGAATCTCACCCTACCTCCTCCTGGTG
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gtgagttcattctccttaatgcaactatgatgtgaaagtaaggtagagaaactatgtttctgtggtcagtattacttttgcagttttgcttatgtctgtccatgtataaaatgtgagtcttgcatgcttagttgttttatgtgtaaggtatttactccttattacttcatccagGGGGAACTGACATATGGGAAGATTGGAGAATGGCGTTTTGACAAGAGGTCTTATCTTTTGGGTCCTCCACCCAAAAACCTGCCCTTACCGCCTCCAGGAG
upper sequence: Vv06s0009g03360.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G08020.1 (Glycine max), 3'ss of exon 6
--------------------------------------------------------------tttactagtgctgtcttg----ccaaactttctttttgtttaagttaaattcttg-------atcattatttatttcttgagtaatttatttcaagttggtaacccttcagGGAGAGCTGACATATGGAAAGATTGGAGAATGGCGTTTTGACAAGAGATCATTTCTTAGTGGCCCTCCACCAAAGAATCTCACCCTACCTCCTCCTGGTG
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gttagtttatttcttcttactttaaattgtatattaaagtaaggtaacaagagtgtggttccttgattaatattccctttgcttttatgtctgcccttgtgcaaaattagggtcttgcatgtctatctttgcttgttgcataagtcaactactcctactacttatatattcagGGGGAACTAACATATGGGAAGATTGGAGAATGGCGTTTTAACAAGAGATTTTATCTATCAGGTCCTCCACCCAAAAACCTTTCCTTACCCCCTCCTGGAGMapped 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|110364715|gb|EC928173.1|EC928173EST: GGAAGAAGTTTATTATCCATTATACATATGGATGTGACTACAATTTGAAG GGAGAGCTGACATATGGAAAGATTGGAGAATGGCGTTTTGACAAGAGATCA
genomic: GGAAGAAGTTTATTATCCATTATACATATGGATGTGACTACAATTTGAAGgtaaaagatt ... aacccttcagGGAGAGCTGACATATGGAAAGATTGGAGAATGGCGTTTTGACAAGAGATCA
EST:
gi|110422611|gb|EC988938.1|EC988938EST: GGAAGAAGTTTATTATCCATTATACATATGGATGTGACTACAATTTGAAG GGAGAGCTGACATATGGAAAGATTGGAGACTGGCGTTTTGACAAGAGATCA
genomic: GGAAGAAGTTTATTATCCATTATACATATGGATGTGACTACAATTTGAAGgtaaaagatt ... aacccttcagGGAGAGCTGACATATGGAAAGATTGGAGAATGGCGTTTTGACAAGAGATCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttgatcattatttatttcttgagtaatttatttcaagttggtaacccttcagGGAGAGCTGACATATGGAAAGATTGGAGAATGGCGTTTTGACAAGAGATCATTTCTTAGTGGCCCTCCACCAAAGAATCTCACCCTACCTCCTCCTGGTG
tggtaac putative branch site (score: 2)
cccttc CT-rich tract
atcattatttatttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttactagtgctgtcttgccaaactttctttttgtttaagttaaattcttgatcattatttatttcttgagtaatttatttcaagttggtaacccttcagGGAGAGCTGACATATGGAAAGATTGGAGAATGGCGTTTTGACAAGAGATCATTTCTTAGTGGCCCTCCACCAAAGAATCTCACCCTACCTCCTCCTGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - -tgtcttg
- - - - - - - - - ccaaact