Sequence
atgc intronic sequence ATGC exonic sequence...accgaacattgatgtcaagcaattgatggaattaaaagaccatttaggttgtttatttgtttaatatcatccttaaaatttctctttgccaatgttgtagGTTGTTGCTGTCAAGAAAATAGATTCATCTGCTCTCCCCGATCAATTTTCTGAAGATTTCACAGAGATAGTATCTAATATCTCCCAGTTGCATCACCCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g00150.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA03G42360.1 (Glycine max), 3'ss of exon 12
accgaacattgatgtca-agcaattgatggaat----taaaagaccatttaggttgttt--atttgtttaatatcatccttaaaatttctctttgccaatgttgtagGTTGTTGCTGTCAAGAAAATAGATTCATCTGCTCTCCCCGATCAATTTTCTGAAGATTTCACAGAGATAGTATCTAATATCTCCCAGTTGCATCACCCAA--------------
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gtaaagtgtgaacactacagatatagctaatatctcattaaataccatgagtttttcttcaattgacctaaaattattaatgat-tttgaccttgttttt-ttgtaggttcttgctgtgaagaagatagattcatctgtccttcccaatgatttgacagatgattttatagAAATAATTTC-AACATCTCCAATTTACATCATCCAAATGTGACAGAGCTT
upper sequence: Vv09s0002g00150.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA07G05230.1 (Glycine max), 3'ss of exon 11
accgaacattgatgtcaagcaattga-tggaattaaaagaccatttaggttgtttatttgtttaatatcatccttaa---aatttctctttgccaatgttgtagGTTGTTGCTGTCAAGAAAATAGATTCATCTGCTCTCCCCGATCAATTTTCTGAAGATTTCACAGAGATAGTATCTAATATCTCCCAGTTGCATCACCCAA
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--ccaata--aataccatggacttttctataatagaccgtgcctagaatctatgtatatgtttattaattgttttgatttggttttctcctgaaaatgttgtagGTTCTTGCCGTGAAGAAGATAGATTCATCTGTCCTTCCCAATGATATGTCTGATGATTTTGTAGAACTGGTTTCAAACATATCCCAATTGCATCATCCCA
upper sequence: Vv09s0002g00150.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT1G53730.2 (Arabidopsis thaliana), 3'ss of exon 11
accgaacattgatgtcaagcaattgatggaattaaaagaccatttaggttgtttatttgtttaatatcatccttaaaatttctctttgccaatgttgtagGTTGTTGCTGTCAAGAAAATAGATTCATCTGCTCTCCCCGATCAATTTTCTGAAGATTTCACAGAGATAGTATCTAATATCTCCCAGTTGCATCACCCAA
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---gtaagatattataatattgtt-atgtaatcctaa---tctctatgtc-tcgaatgatgtcataatgttgttggaaaacgtctt-----atcttttagGTTCTTGCTGTGAAGAAAATTGATTCGTCTGCTCTCCCACATGGCATGACCGATGATTTCATTGAAATGGTATCGAAAATAGCCAATTTGGATCATCCAAMapped 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|110701239|gb|EE078596.1|EE078596EST: GTGAGGGGTCTTTTGGACGTGTTTATCAGGCTCAATTTGATGATGGAAAG GTTGTTGCTGTCAAGAAAATAGATTCATCTGCTCTCCCCGATCAATTTTCT
genomic: GTGAGGGGTCTTTTGGACGTGTTTATCAGGCTCAATTTGATGATGGAAAGgtacatattt ... aatgttgtagGTTGTTGCTGTCAAGAAAATAGATTCATCTGCTCTCCCCGATCAATTTTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggttgtttatttgtttaatatcatccttaaaatttctctttgccaatgttgtagGTTGTTGCTGTCAAGAAAATAGATTCATCTGCTCTCCCCGATCAATTTTCTGAAGATTTCACAGAGATAGTATCTAATATCTCCCAGTTGCATCACCCAA
gtttaat putative branch site (score: 4)
tttatttgtttaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
accgaacattgatgtcaagcaattgatggaattaaaagaccatttaggttgtttatttgtttaatatcatccttaaaatttctctttgccaatgttgtagGTTGTTGCTGTCAAGAAAATAGATTCATCTGCTCTCCCCGATCAATTTTCTGAAGATTTCACAGAGATAGTATCTAATATCTCCCAGTTGCATCACCCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
accgaac
- - - - - - - tcaagca
- - - - - - - - - - - -tgatgga
- - - - - - - - - - - - - - - - - aaagacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatcct