Sequence
atgc intronic sequence ATGC exonic sequencegtcattcctactctaagctcttgatcatttttcattttgcccgaaactaaaaattacatttactttctaagctacccaaattcttcttttttgccaatttgtgcatgtttgatgcaacatctaaattgagagttttgtaatgtatgtttttacagACAATTTATTTGCTGTCACACCCAGATGGGAGTATGAAACTTTTCGAGTTTGTGATCATATTTGGAGGCCTAATGCTGATTTTAGCTCAACTCCCATCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g01210.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G19500.1 (Glycine max), 3'ss of exon 5
gtcattcctactctaagctcttgatcatttttcattttgcccgaaactaaaaattacatttactttctaagctacccaaattcttcttttttgccaatttgtgcatgtttgatgcaacatctaaattgagagttttgtaatgtatgtttttacagACAATTTATTTGCTGTCACACCCAGATGGGAGTATGAAACTTTTCGAGTTTGTGATCATATTTGGAGGCCTAATGCTGATTTTAGCTCAACTCCCATCTT
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-----------------------------------------atactttaaaggtcacttgtgaata-tagaaaaatcaaattgatgacctccacc---ttgtccttacccttttatgctttt----------tcctataatggaattaactccagGCAATTTACTTGCTGTCAAATCCAAACGGAACCATGAAGCTTTACGAGTTTGTAATCATATTTGGATGCTTCATGCTGATTTTGGCTCAAATCCCATCTT
upper sequence: Vv06s0061g01210.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G08980.1 (Glycine max), 3'ss of exon 3
gtcattcctactctaagctcttgatcatttttcattttgcccgaaactaaaaattacatttactttctaagctacccaaattcttcttttttgccaatttgtgcatgtttgatgcaacatctaaattgagagttttgtaatgtatgtttttacagACAATTTATTTGCTGTCACACCCAGATGGGAGTATGAAACTTTTCGAGTTTGTGATCATATTTGGAGGCCTAATGCTGATTTTAGCTCAACTCCCATCTT
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----------------------------------------------ttaatctttaaaggtcacttgtgaattttgaaaaatcaaatcgatgacc------tctacattgcccttaaccttttatcctt---tttcctaatggaaataactccagGCAATTTACTTGCTGTCAAATCCAAACGGGACCATGAAGCTTTACGAGTTTGTAATTATATTTGGATGCTTCATGCTGATTTTGGCTCAAATCCCATCTT
upper sequence: Vv06s0061g01210.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G30550.1 (Glycine max), 3'ss of exon 2
gtcattcctactctaagctcttgatcatttttcattttgcccgaaactaaaaattacatttactttctaagctacccaaattcttcttttttgccaatttgtgcatgtttgatgcaacatctaaattgagagttttgtaatgtatgtttttacagACAATTTATTTGCTGTCACACCCAGATGGGAGTATGAAACTTTTCGAGTTTGTGATCATATTTGGAGGCCTAATGCTGATTTTAGCTCAACTCCCATCTT
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------------------------------------aaaatagacaagaaaaaataaataggagtactgagca---cacatacataggcattgactatataccgattcttcac---------------agcttttcctaatggac-caactgcagGCAATGTACCTGCTGTCAAACCCAAATGGAACTATGAAGCTTTATGAGTTTGTAGTGATATTTGGATACTTCATGCTGATTTTGGCTCAAATCCCATCTT
upper sequence: Vv06s0061g01210.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G05380.1 (Glycine max), 3'ss of exon 2
gtcattcctactctaagctcttgatcatttttcattttgcccgaaactaaaaattacatttactttctaagctacccaaattcttcttttttgccaatttgtgcatgtttgatgcaacatctaaattgagagttttgtaatgtatgtttttacagACAATTTATTTGCTGTCACACCCAGATGGGAGTATGAAACTTTTCGAGTTTGTGATCATATTTGGAGGCCTAATGCTGATTTTAGCTCAACTCCCATCTT
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----------------------------------atagaccaggaaaaaaaaaaaaggagtactgagtatac-atacatagacattgactctactgattctt-----cttcacg---------------gcttttcctaacggaaccaactgcagGCAATGTACCTGCTGTCAAACCCAAATGGAAGTATGAAGCTTTATCAGTTTGTAGTGATATTTGGATGCTTCATGCTGATTTTGGCTCAAATTCCATCTTMapped 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|161715769|gb|FC066173.1|FC066173EST: GTTATGGTGCCGTTGTTGCCTCTACTCTGCTAGGAGGACAATGCCTGAAG ACAATTTATTTGCTGTCACACCCAGATGGGAGTATGAAACTTTTTGAGTTT
genomic: GTTATGGTGCCGTTGTTGCCTCTACTCTGCTAGGAGGACAATGCCTGAAGgtcattccta ... gtttttacagACAATTTATTTGCTGTCACACCCAGATGGGAGTATGAAACTTTTCGAGTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgcatgtttgatgcaacatctaaattgagagttttgtaatgtatgtttttacagACAATTTATTTGCTGTCACACCCAGATGGGAGTATGAAACTTTTCGAGTTTGTGATCATATTTGGAGGCCTAATGCTGATTTTAGCTCAACTCCCATCTT
atctaaa putative branch site (score: 3)
tgttttt putative PPT
taatgtatgttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcattcctactctaagctcttgatcatttttcattttgcccgaaactaaaaattacatttactttctaagctacccaaattcttcttttttgccaatttgtgcatgtttgatgcaacatctaaattgagagttttgtaatgtatgtttttacagACAATTTATTTGCTGTCACACCCAGATGGGAGTATGAAACTTTTCGAGTTTGTGATCATATTTGGAGGCCTAATGCTGATTTTAGCTCAACTCCCATCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA