Sequence
atgc intronic sequence ATGC exonic sequence...tgtaatggtcttatggcatgccttgttgaatgttgtaggccgtaacctgtattgttatgttatttgattaatttttttcctcttgaattttgttgcacagACAAAGCCTGCTCTTCCAGCACTTGAGCGTCTTATTCACTCAAATGATGAAGAGGTGTTAACTGATGCATGTTGGGCACTGTCTTATCTTTCTGATGGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 5
tgtaatggtcttatggcatgccttgttgaatgttgtaggccgtaacctgtattgttatgttatttgattaatttttttcctcttgaattttgttgcacagACAAAGCCTGCTCTTCCAGCACTTGAGCGTCTTATTCACTCAAATGATGAAGAGGTGTTAACTGATGCATGTTGGGCACTGTCTTATCTTTCTGATGGTA
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---------gtttggacaaagtttctt---tgtactctactgtagttagtagggaaa-gacagttccttaacatgatgtttattgggtgtca----atagACTAGGCCTGCTCTTCCAGCACTGGCACGGCTTATTCACTCCAATGATGAGGAAGTTCTCACTGATGCGTGCTGGGCTCTTTCATATTTATCTGATGGCA
upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G38320.1 (Glycine max), 3'ss of exon 5
---tgtaatggtct-tatggcatgcctt-gttgaatgttgtaggccgtaacctgtattgttatgttatttgattaatttttttcctcttgaattttgttgcacagACAAAGCCTGCTCTTCCAGCACTTGAGCGTCTTATTCACTCAAATGATGAAGAGGTGTTAACTGATGCATGTTGGGCACTGTCTTATCTTTCTGATGGTA
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atttgttttcttgtatgtgtcctgcttttactgattgatttaagctgctattattttctatttcacagttcatacattatactgttttt-----ttttccttcagGTTAAACCTGCACTTCCTGCTCTTGCCCGTCTTATCCATTCAAACGATGAAGAAGTATTGACTGATGCATGTTGGGCACTGTCATATCTTTCTGATGGCA
upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G29000.1 (Glycine max), 3'ss of exon 5
tgtaatggtcttatggc-atgccttgttgaatgttgtaggccgtaacctgtattgttatgttatttgattaatt-tttttcctcttgaattttgttgcacagACAAAGCCTGCTCTTCCAGCACTTGAGCGTCTTATTCACTCAAATGATGAAGAGGTGTTAACTGATGCATGTTGGGCACTGTCTTATCTTTCTGATGGTA
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--cattggtcttttgtttatgtcctgcttttactgatttattataagctgctattgtgttttatttcacagttcatacattatactttgtttttttcttcagGTTAAACCTGCACTTCCTGCTCTTGCCCGTCTTATCCATTCGAACGATGAAGAAGTTTTGACTGATGCATGTTGGGCACTGTCATATCTTTCTGATGGTA
upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G39210.1 (Glycine max), 3'ss of exon 6
tgtaatggtct-tatggcatgccttgttgaatgttgtaggccgtaacctgtattgttatgttatttgattaa--tttttttcctcttgaattttgttgcacagACAAAGCCTGCTCTTCCAGCACTTGAGCGTCTTATTCACTCAAATGATGAAGAGGTGTTAACTGATGCATGTTGGGCACTGTCTTATCTTTCTGATGGTA
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tgtgctgatatgtgaagcaaatgcaagttgtttttcccagtttagatttgc-tggctctgtt--ttgactgaggattgattgatttttatcctttttttacagGTTAAACCTGCACTTCCTGCTCTTGCCAGTCTTATCCAGTCAAATGATGAAGAAGTCCTGACTGATGCTTGTTGGGCACTTTCATATCTTTCTGATGGTA
upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G41770.1 (Glycine max), 3'ss of exon 5
--------tgtaatggtcttatggcatgccttgttgaatgtt-gtaggccgtaacctgtattgttatgttatttgattaatttttttcctcttgaattttgttgcacagACAAAGCCTGCTCTTCCAGCACTTGAGCGTCTTATTCACTCAAATGATGAAGAGGTGTTAACTGATGCATGTTGGGCACTGTCTTATCTTTCTGATGGTA
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tgctgatatgtgaagctaatgcaagttgtttttcccagtttttatttgctg-gctctgttttgac-tgaggattgattgatttttatcct-------tcttttttacagGTAAAGCCTGCACTTCCTGCTCTTGCCAGTCTTATCCAGTCAACTGATGAAGAAGTATTGACTGACGCTTGTTGGGCACTTTCATATCTTTCTGACGGTAMapped 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|110359173|gb|EC920237.1|EC920237EST: GGACACTTTCAAATTTCTGTAGGGGCAAGCCACAGCCTCCTTTTGATCAG ACAAAGCCTGCTCTTCCAGCACTTGAGCGTCTTATTCACTCAAATGATGAA
genomic: GGACACTTTCAAATTTCTGTAGGGGCAAGCCACAGCCTCCTTTTGATCAGgtttgctgtt ... tgttgcacagACAAAGCCTGCTCTTCCAGCACTTGAGCGTCTTATTCACTCAAATGATGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctgtattgttatgttatttgattaatttttttcctcttgaattttgttgcacagACAAAGCCTGCTCTTCCAGCACTTGAGCGTCTTATTCACTCAAATGATGAAGAGGTGTTAACTGATGCATGTTGGGCACTGTCTTATCTTTCTGATGGTA
gattaat putative branch site (score: 3)
ttttgtt putative PPT
attgttatgttatttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtaatggtcttatggcatgccttgttgaatgttgtaggccgtaacctgtattgttatgttatttgattaatttttttcctcttgaattttgttgcacagACAAAGCCTGCTCTTCCAGCACTTGAGCGTCTTATTCACTCAAATGATGAAGAGGTGTTAACTGATGCATGTTGGGCACTGTCTTATCTTTCTGATGGTA
- - - - -cttatgg
- - - - - - - - catgcct
- - - - - - - - - - - - - - - - - - - - - - acctgta