Sequence
atgc intronic sequence ATGC exonic sequenceTTACTCAGAGTCTGAATACTTTAAGCAAACAATGCGGCAAGGTGCTCCAGCAAAACAAAGAGAGCCTAGAATACCGCGCATGCCCCAGCTgtaagcatctctttgaactgattgctttcttggattgtagttgatgttttcatctgctttatatgttttgcctctgtttttag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: 13113.m00246 (Oryza sativa), 5'ss of exon 17
TTACTCAGAGTCTGAATACTTTAAGCAAACAATGCGGCAAGGTGCTCCAGCAAAACAAAGAGAGCCTAGAATACCGCGCATGCCCCAGCTgtaagcatctctttgaactgattgctttcttggattgtagttgatgttttcatctgctttatatgttttgcctctgtttttag-----------------------
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CTACTCTGAGTCTGAATACTTTAAGCAAGCACTTCGCCAAGGTGCACCTGCAAAACCTAGGGAACCACGAATTCCAAGAATGCCACACCTgtaagttttctcttgcctctttcattttgtgaaaaaaaaaatcatgatt--accttgtttgctctctttagaactactgtcagctcatattgtttttgtttgtcag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 5'ss of exon 17
TTACTCAGAGTCTGAATACTTTAAGCAAACAATGCGGCAAGGTGCTCCAGCAAAACAAAGAGAGCCTAGAATACCGCGCATGCCCCAGCTgtaagcatctctttgaactgattgctttcttggattgtagttgatgttttcatctgctttatatgttttgcctctgtttttag-----------------------
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CTACTCTGAGTCTGAATACTTTAAGCAAGCACTTCGCCAAGGTGCACCTGCAAAACCTAGGGAACCACGAATTCCAAGAATGCCGCACCTgtaagt-tttctcttgcctctttcattttgtgaaaaaaaaatcatgatt--accttgtttgctctctttagaactactgtcagctcatattgtttttgtttgtcag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GRMZM2G010085_T01 (Zea mays), 5'ss of exon 14
TTACTCAGAGTCTGAATACTTTAAGCAAACAATGCGGCAAGGTGCTCCAGCAAAACAAAGAGAGCCTAGAATACCGCGCATGCCCCAGCTgtaagcatctctttgaactgattgctttcttggattgtagttgatgttttcatctgctttatatgttttgcctctgtttttag
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CTACTCTGAGTCTGACTACTTTAAGCAAGCACTTCGCCAAGGTGCACCAGCAAAGCCTAGGGAACCAAGGATTCCAAGAATGCCGCACTTgtaaattcttgttttctcgaatactaatcaatggttctatttcactgatttgtacctgacttggctttaattttttgtgttag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA17G02640.1 (Glycine max), 5'ss of exon 17
TTACTCAGAGTCTGAATACTTTAAGCAAACAATGCGGCAAGGTGCTCCAGCAAAACAAAGAGAGCCTAGAATACCGCGCATGCCCCAGCTgtaagcatctctttgaa--ctgattgctttcttggattgtagttgatgt--tttcatctgctttatatgttttgcctctgtttttag---
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TTACTCAGAGTCTGAATACTTCAAGCAAACAATGCGCCAAGGTGGTCTTACTAAACCAAAAGAGCCTCGTATTCCTAGGATGCCTCAATTgtatgcttctcatacaaaccttttttttttttttccttttttttaatggagttctattttgattgagt-ttttaattctgtttccttcag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA15G10370.1 (Glycine max), 5'ss of exon 17
TTACTCAGAGTCTGAATACTTTAAGCAAACAATGCGGCAAGGTGCTCCAGCAAAACAAAGAGAGCCTAGAATACCGCGCATGCCCCAGCTgtaagcatctctttgaactgattgctttcttggattgt-agt-tgatgttttcatctgctttata-tgttttgcctctgtttttag--------
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TTACTCAGAGTCTGAATACTTCAAGCAAACAATGCGCCAAGGTGGTCCTACCAAACCAAAAGAGCCCCGTATTCCTAGGATGCCCCAGTTgtaagcttctac---acttgatttttcttcttaacagttagcatagtacctccgttatttacttactgatatttttttgttctttgacctccag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 17
TTACTCAGAGTCTGAATACTTTAAGCAAACAATGCGGCAAGGTGCTCCAGCAAAACAAAGAGAGCCTAGAATACCGCGCATGCCCCAGCTgtaagcatct---ctttgaactgattgctt----tcttggattgtagttgatgttttcatctgct--ttatatgttttgcctctgtttttag
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TTACTCGGAGTCTGAATACTTCAAGCAAACAATGCGCCAAGGTGGTCCTACCAAACCAAAAGAGCCCCGTATTCCTAGGATGCCCCAGTTgtaagcttctacactttgatttttcttcttaacaattagcatagtacctctgttatttacttactgataattttttgttctttgacgtctag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA07G38050.2 (Glycine max), 5'ss of exon 17
TTACTCAGAGTCTGAATACTTTAAGCAAACAATGCGGCAAGGTGCTCCAGCAAAACAAAGAGAGCCTAGAATACCGCGCATGCCCCAGCTgtaagcatctctttgaactgattgctttcttggattgtagttgatgttttcatctgctttatatgttttgcctctgtttttag-
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TTACTCGGAGTCTGAATACTTCAAGCAAACAATGCGCCAAGGTGGCCCTACTAAACCAAAAGAGCCTCGTATTCCTAGGATGCCTCAATTgtaagcttctcat---acaaacctctttttttttttttgaatggagttctattttgactgagtttttaattctgtttccttcag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: AT3G06400.3 (Arabidopsis thaliana), 5'ss of exon 17
TTACTCAGAGTCTGAATACTTTAAGCAAACAATGCGGCAAGGTGCTCCAGCAAAACAAAGAGAGCCTAGAATACCGCGCATGCCCCAGCTgtaagcatctctttgaactg-attgctttcttggat-tgtagttgatgttttcatctgctttatatgttttgcctctg-tttttag------------
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CTACTCTGAATCTGAGTACTTTAAGCAAACATTGCGGCAAGGTGCTCCAGCTAAACCTAAAGAGCCTAGAATTCCGCGCATGCCCCAGTTgtgagtacctcaacaacctccatctcattgttgaatgccttttccctgttttgatgattttcttacactagaaatctaatttattgtccctctttcag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 5'ss of exon 17
TTACTCAGAGTCTGAATACTTTAAGCAAACAATGCGGCAAGGTGCTCCAGCAAAACAAAGAGAGCCTAGAATACCGCGCATGCCCCAGCTgtaagcatctctttgaactgattgctttcttggattgtagttgatgttttcatctgctttatatgttttgcctctgtttttag--------------------------
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CTACTCTGAAGTTGAATACTTCAAGCAAACGTTGCGACAAGGTGCTCCAGCTAAACCTAAAGAGCCTAGAATTCCACGCATGCCCCAATTgtgagtacctc----aattgtctccactct------gcatttagccttttc-cctgtcttatttatagtacttttatcgtaaaaatctaatttcttgtccatcctgcagMapped 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|28967912|gb|CB346945.1|CB346945EST: GGTGCTCCAGCAAAACAAAGAGAGCCTAGAATTCCGCGCATGCCCCAGCT GCATGATTTCCAATTCTTTAACACACAAAGGCTGAATGAGTTGTATGAGAA
genomic: GGTGCTCCAGCAAAACAAAGAGAGCCTAGAATACCGCGCATGCCCCAGCTgtaagcatct ... ctgtttttagGCATGATTTCCAATTCTTTAACACACAAAGGCTGAATGAGTTGTATGAGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTACTCAGAGTCTGAATACTTTAAGCAAACAATGCGGCAAGGTGCTCCAGCAAAACAAAGAGAGCCTAGAATACCGCGCATGCCCCAGCTgtaagcatctctttgaactgattgctttcttggattgtagttgatgttttcatctgctttatatgttttgcctctgtttttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA