Sequence
atgc intronic sequence ATGC exonic sequence...agaatttaattgtatagctgtgtgttcctagatgtctgaattattgtcatgtcacatattaattgtcttctttctttttctttgaacgtttgtgttacagCATGCAGTTGGGTATGTGACTGGAGATCAGTACTATGGAGCAAAGGCCAGCATAAATGTGTGGGCACCCCGGGTGGCTAATCAATATGAATTCAGCTTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0127g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G03390.1 (Glycine max), 3'ss of exon 3
---agaatttaattgtatagctgtgtgttcctagatgtctgaattattgtcatgtcacatattaattgtcttctttctttttctttgaacgtttgtgttacagCATGCAGTTGGGTATGTGACTGGAGATCAGTACTATGGAGCAAAGGCCAGCATAAATGTGTGGGCACCCCGGGTGGCTAATCAATATGAATTCAGCTTAT
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tatcaattctgattgattgatgatgtaaaattttctatagtcattaaactggttacttatatgcagacttaacaataatttttgttggtgaactgc---acagCATGCAGTTGGGTATGTGAGTGGAGAGCAGTACTACGGAGCAAAGGCAAGCATAAACGTGTGGGCACCCCGAGTGGCAAATCAAGATGAATTCAGCTTGT
upper sequence: Vv01s0127g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G04240.1 (Glycine max), 3'ss of exon 6
--------agaatttaattgtatagctgtgtgttcctagatgtctgaattattgtcatgtcacatattaattgtcttctttctttttctttgaacgtttgtgttacagCATGCAGTTGGGTATGTGACTGGAGATCAGTACTATGGAGCAAAGGCCAGCATAAATGTGTGGGCACCCCGGGTGGCTAATCAATATGAATTCAGCTTAT
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gtcatatcaataattattactcttaatgca-atgcatag-tgattaaactatagttactt---atatggaaacctaacaatagtttttgttggtgaactgc---acagCATGCAGTTGGGTATGTGAGTGGAGAGCAGTACTACGGAGCAAAGGCTAGCATAAACGTGTGGGCACCCCGAGTGGAAAATCAAGATGAATTCAGCTTGT
upper sequence: Vv01s0127g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G39100.1 (Glycine max), 3'ss of exon 3
----agaatttaattgtatagctgtgtgttcctagatgtctgaattattgtcatgtcacatattaattgtcttctttctttttctttgaac-gtttgtgttacagCATGCAGTTGGGTATGTGACTGGAGATCAGTACTATGGAGCAAAGGCCAGCATAAATGTGTGGGCACCCCGGGTGGCTAATCAATATGAATTCAGCTTAT
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aaacacaatccaacattgaagttaatttcttccatgaaccttaattat-gctatcttgaa----attggtctaacaaaatgttcttgatgctgcacactgcacagCATGCAATTGGGTATGTGACAGGAGATCAGTACTACGGATCAAAGGCTAGCATAAACGTGTGGGCACCCCTTGTGGAAAACCCATATGAATTCAGCTTGT
upper sequence: Vv01s0127g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G20700.1 (Glycine max), 3'ss of exon 3
-----agaatttaattgtatagctgtgtgttcctagatgtctgaattattgtcatgtcacatattaattgtcttctttctttttctttg-aacgtttgtgttacagCATGCAGTTGGGTATGTGACTGGAGATCAGTACTATGGAGCAAAGGCCAGCATAAATGTGTGGGCACCCCGGGTGGCTAATCAATATGAATTCAGCTTAT
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caaacagaatccaacattgaagtta---atttct---tatgtaaaccttaaatatgctacttgaaattggtctaacaaaaggttcttgatggtgcacactgcacagCATGCAATTGGGTATGTGACAGGGGATCAGTACTACGGAGCAAAGGCTAGCATTAACGTGTGGGCACCCCTTGTGGAAAACCCATATGAATTCAGCTTGTMapped 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|56408725|gb|CX016977.1|CX016977EST: GAAAAGTAAGGCGACATGTTAGAAGAGACTCCTCCAGCAATGGCCATGAG CATGCAGTTGGGTATGTGACTGGAGATCA
genomic: GAAAAGTAAGGCGACATGTTAGAAGAGACTCCTCCAGCAATGGCCATGAGgttagtgttt ... tgtgttacagCATGCAGTTGGGTATGTGACTGGAGATCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcatgtcacatattaattgtcttctttctttttctttgaacgtttgtgttacagCATGCAGTTGGGTATGTGACTGGAGATCAGTACTATGGAGCAAAGGCCAGCATAAATGTGTGGGCACCCCGGGTGGCTAATCAATATGAATTCAGCTTAT
tattaat putative branch site (score: 2)
atattaattgtctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaatttaattgtatagctgtgtgttcctagatgtctgaattattgtcatgtcacatattaattgtcttctttctttttctttgaacgtttgtgttacagCATGCAGTTGGGTATGTGACTGGAGATCAGTACTATGGAGCAAAGGCCAGCATAAATGTGTGGGCACCCCGGGTGGCTAATCAATATGAATTCAGCTTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - tgtgtgt
- - - - - - - - - - - - - - - - tgtctga
- - - - - - - - - - - - - - - - - - - - - - - tcatgtc