Sequence
atgc intronic sequence ATGC exonic sequence...tgctgggcaaaatgaaaaactgtgggcttttttccatggtgactattgcatggtgccatattcagccaacttgatgatgtgtcaaaattcctgtctgcagGTTCTGCAAAAAGCTTTGGAGGTGTGGGATCTGCAAGTGATCCCCCTTGATTGTCCAGTTGCTGAGCCTGCCCAGATCGACCCTGAGCTGGAAAATGCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g01730.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA03G14740.1 (Glycine max), 3'ss of exon 1
-----tgc-tgggcaaaatgaaaaactgtgggcttttttccatggtgactattgcatggtgccatattcagccaacttgatgatgtgtcaaaattcctgtctgcagGTTCTGCAAAAAGCTTTGGAGGTGTGGGATCTGCAAGTGATCCCCCTTGATTGTCCAGTTGCTGAGCCTGCCCAGATCGACCCTGAGCTGGAAAATGCAT
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tttgttgcatgcatcaaatattaattttgggcatgcaatttaggatttggatcctttgcaattttat--gatttacttaattatgc----aaagccttttctgtagGTTTTACAAAAGGCTCTGGAAGTGTGGGACCTACAAGTTATCCCTCTTGACTCTCCAGTTGCTGAGCCTGCCCAGATTGACCCTGAGCTGGAAAATGCCT
upper sequence: Vv08s0007g01730.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G27200.1 (Glycine max), 3'ss of exon 1
---tgctgggcaaaatgaaaaactgtgggcttttttccatggtgactattgcatggtgccatattcagccaacttgatg-atgtgtcaaaattc--ctgtctgcagGTTCTGCAAAAAGCTTTGGAGGTGTGGGATCTGCAAGTGATCCCCCTTGATTGTCCAGTTGCTGAGCCTGCCCAGATCGACCCTGAGCTGGAAAATGCAT
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gcctgttttttataactatgg-ttacaagtagttttttgttttgtcatttg-----tgaaatcactgacaagtttgttgcatgcatcaaatattaattttctgtagGTTTTACAAAAGGCTCTGGAAGTTTGGGACCTACAAGTTATCCCTCTTGACTCTCCAGTTGCTGAGCCTGCCCAGATTGACCCTGAGCTGGAAAATGCCT
upper sequence: Vv08s0007g01730.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G54130.1 (Arabidopsis thaliana), 3'ss of exon 1
--tgctgggcaaaatgaaaaactgtgggctttt--ttccatggtgactattgcatggtgccatattcagccaacttgatgatgtgtcaaaattcctgtctgcagGTTCTGCAAAAAGCTTTGGAGGTGTGGGATCTGCAAGTGATCCCCCTTGATTGTCCAGTTGCTGAGCCTGCCCAGATCGACCCTGAGCTGGAAAATGCAT
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aacagagggtttatgcgattggtgtagcattttaatcttgcaaagttgatctagtctttgcttattcgtttaact-gagaatgcttctg---tttgattgacagGTCTTGCAAAAAGCTTTGGAAGTGTGGGATCTACAAGTAATTCCACTCAATTGTCCAGATGCAGAGCCTGCGCAGATAGACCCTGAGCTTGAAAGCGCCTMapped 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|110732447|gb|EE107742.1|EE107742EST: TTTCTGAGGACTCCCATAATGTCTCTATGGACGGGGATTTCAGTATCCAG GTTCTGCAAAAAGCTTTGGAGGTGTGGGATCTGCAAGTGATCCCCCTTGAT
genomic: TTTCTGAGGACTCCCATAATGTCTCTATGGACGGGGATTTCAGTATCCAGgtttcttttt ... ctgtctgcagGTTCTGCAAAAAGCTTTGGAGGTGTGGGATCTGCAAGTGATCCCCCTTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgcatggtgccatattcagccaacttgatgatgtgtcaaaattcctgtctgcagGTTCTGCAAAAAGCTTTGGAGGTGTGGGATCTGCAAGTGATCCCCCTTGATTGTCCAGTTGCTGAGCCTGCCCAGATCGACCCTGAGCTGGAAAATGCAT
acttgat putative branch site (score: 5)
ttcctgtct putative PPT
tcaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgctgggcaaaatgaaaaactgtgggcttttttccatggtgactattgcatggtgccatattcagccaacttgatgatgtgtcaaaattcctgtctgcagGTTCTGCAAAAAGCTTTGGAGGTGTGGGATCTGCAAGTGATCCCCCTTGATTGTCCAGTTGCTGAGCCTGCCCAGATCGACCCTGAGCTGGAAAATGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - -ggcaaaa
- - - - - - tgaaaaa
- - - - - - - - - - - - - - - - -ccatggt
- - - - - - - - - - - - - - - - - - - - - - - -gcatggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gccaact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcaaaat