Sequence
atgc intronic sequence ATGC exonic sequence...agcattttttcttaaaaagtgatagtgaagcttattttttttgtggatcctaatgcttaaagtgcttgtttcacaacattgttgtggatttcttttgcagGCGGAAGTCAACTACTTAGGGCAGCTCAGTCACCCAAATCTCGTGAAGCTCATTGGATTCTGCTGTGAAGATGACCATAGGCTGTTGGTCTATGAATATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0065g00470.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G36500.2 (Glycine max), 3'ss of exon 2
-----agcattttttcttaaaaagtgatagtgaagcttattttttttgtggatcctaatgcttaaagtgcttgtttcacaacattgttgtggatttcttttgcagGCGGAAGTCAACTACTTAGGGCAGCTCAGTCACCCAAATCTCGTGAAGCTCATTGGATTCTGCTGTGAAGATGACCATAGGCTGTTGGTCTATGAATATA
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gtttgaacaatgagaat-agacagttagagtggaaaggagtttat--gcaagtgaaaagtagacaggaccgaacttagctgcatggttttg--tttcctttgcagGCGGAAGTTAACTATTTAGGTCAATTCAGTCACCCAAATCTGGTGAAGCTCATTGGATATTGCTGTGAGGACGACCACCGGTTATTGGTCTATGAATACA
upper sequence: Vv11s0065g00470.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G03070.1 (Glycine max), 3'ss of exon 2
agcattttttct-taaaaagtgatagtgaagctt--attttttttgtggatcctaatgcttaaagtgcttg--tttcacaacattgttgtggatttcttttgcagGCGGAAGTCAACTACTTAGGGCAGCTCAGTCACCCAAATCTCGTGAAGCTCATTGGATTCTGCTGTGAAGATGACCATAGGCTGTTGGTCTATGAATATA
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---gtttgaacaatgagaattgactgttagagtggaaaggagtttatgcaagtaaagactggacaggactgaacttagccgcatggttttg--tttactttgcagGCGGAAGTTAACTATTTAGGTCAATTCAGTCACCCAAATCTGGTGAAGCTCATTGGATATTCCTGTGAGGATGACCACCGGTTATTGGTGTATGAATACA
upper sequence: Vv11s0065g00470.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G07180.2 (Arabidopsis thaliana), 3'ss of exon 3
agcattttttcttaaaaagtgatagtgaagcttattttttttgtggatcctaatgcttaaagtgcttgtttcacaacattgttgtggatttcttttgcagGCGGAAGTCAACTACTTAGGGCAGCTCAGTCACCCAAATCTCGTGAAGCTCATTGGATTCTGCTGTGAAGATGACCATAGGCTGTTGGTCTATGAATATA
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------------------gtaatgttggatata--tcgttatgtacttgggaatgt-----gtggtttttttataac--tgttggtgttttttt----agGCTGAAGTCAACTATTTAGGACAGCTGAGTCACCCGAATTTGGTGAAACTTATTGGCTACTGCTGTGAAGATGATCATAGATTGTTAGTCTATGAATACAMapped 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|161718991|gb|FC067611.1|FC067611EST: CCATTAAGGAGCTTAATCCAGAAGGTTTTCAAGGCGATAGAGAATGGCTG GCGGAAGTCAACTACTTAGGGCAGCTCAGTCACCCAAATCTCGTGAAGCTC
genomic: CCATTAAGGAGCTTAATCCAGAAGGTTTTCAAGGCGATAGAGAATGGCTGgtattttcag ... tcttttgcagGCGGAAGTCAACTACTTAGGGCAGCTCAGTCACCCAAATCTCGTGAAGCTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatcctaatgcttaaagtgcttgtttcacaacattgttgtggatttcttttgcagGCGGAAGTCAACTACTTAGGGCAGCTCAGTCACCCAAATCTCGTGAAGCTCATTGGATTCTGCTGTGAAGATGACCATAGGCTGTTGGTCTATGAATATA
tcctaat putative branch site (score: 2)
tttcttttgc putative PPT
atttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agcattttttcttaaaaagtgatagtgaagcttattttttttgtggatcctaatgcttaaagtgcttgtttcacaacattgttgtggatttcttttgcagGCGGAAGTCAACTACTTAGGGCAGCTCAGTCACCCAAATCTCGTGAAGCTCATTGGATTCTGCTGTGAAGATGACCATAGGCTGTTGGTCTATGAATATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - -aaaaagt
- - - - - - - - - - - - -tgaagct
- - - - - - - - - - - - - - - - - - - - ttgtgga
- - - - - - - - - - - - - - - - - - - - - - - - -ctaatgc