Sequence
atgc intronic sequence ATGC exonic sequence...ccaaaccacactccacttcccaagtttgatatattttttccttaattcaccctgtatttcacctattatttattaatttattttttaaacttttgaacagGGAAAGCACTCCAGCAGATAAGGTCAAGGAAGCACATAGGAAGGTGATGGTTGCAAATCACCCTGATGCAGGTGGCAGCCATTACCTTGCCTCAAAAATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g02370.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g06454.1 (Oryza sativa), 3'ss of exon 2
ccaaaccacactccacttcccaagtttgatatattttttccttaattcaccctgt-atttcacctattatttattaatttattttttaaacttttga--acagGGAAAGCACTCCAGCAGATAAGGTCAAGGAAGCACATAGGAAGGTGATGGTTGCAAATCACCCTGATGCAGGTGGCAGCCATTACCTTGCCTCAAAAATT
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gttggtgatgtttcaacttgtca--ttgtta-atattcaatttgaggcacactatgattcttgctattgttcattggtctcttttttcttttgatgcctccagAGAAAATGTCCATCCTGAGAAGGTTAAAGAGGCACACAAAAAGGTCATGGTTGCCAATCATCCGGATGCAGGGGGCAGTCATTACCTTGCTTCGAAGATT
upper sequence: Vv08s0040g02370.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os07g09450.1 (Oryza sativa), 3'ss of exon 2
ccaaaccacactccacttcccaagtttgatatattttttccttaattcac---cctgtatttcacctattatttattaatttattttttaaacttttgaacagGGAAAGCACTCCAGCAGATAAGGTCAAGGAAGCACATAGGAAGGTGATGGTTGCAAATCACCCTGATGCAGGTGGCAGCCATTACCTTGCCTCAAAAATT
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ttaattca-acagtttttatttggtaacttgcaatttgagatttatttacgtttctttctttcattaagttgttgttcctttcctcctttgatccctg--cagGGAAAACGCCCATCCTGAGAAGGTAAAAGAGGCGCATAAGAAGGTCATGGTTGCTAACCATCCAGATGCAGGCGGTAGCCATTACCTTGCTTCAAAGATC
upper sequence: Vv08s0040g02370.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G05710.1 (Glycine max), 3'ss of exon 2
-----------ccaaaccacactccacttcccaagtttgatatattttttccttaattcaccctgtatttcacctattatttattaatttattttttaaacttttgaacagGGAAAGCACTCCAGCAGATAAGGTCAAGGAAGCACATAGGAAGGTGATGGTTGCAAATCACCCTGATGCAGGTGGCAGCCATTACCTTGCCTCAAAAATT
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attggttgatatgaatttttattacgagtcttgcccttgacaaagttttagca-gatgtattttgtgtttctcttactgatttccaattg-----tcatgttt-----cagGGAACGCACTCCAACAGATAAGATTAAAGAAGCACATAGGAGGGTGATGGTTGCAAACCATCCAGATGCAGGTGGCAGCCATTACCTTGCATCCAAAATT
upper sequence: Vv08s0040g02370.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G20060.1 (Glycine max), 3'ss of exon 2
ccaaaccacactccacttcccaagtttgatatattttttccttaa--ttcaccc--tgtatttcacctattatttattaatttattttttaaacttttgaacagGGAAAGCACTCCAGCAGATAAGGTCAAGGAAGCACATAGGAAGGTGATGGTTGCAAATCACCCTGATGCAGGTGGCAGCCATTACCTTGCCTCAAAAATT
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-aatatgaatttttgttagttgttactagtcttgcccttgacaaagttttagcagatgtattttgtgtttctcttgctgattttcagtttttatgttt---cagAGAACGCACTCCAACAGATAAGATTAAAGAAGCACATAGGAGGGTGATGGTTGCAAACCATCCAGATGCAGGTGGCAGCCATTACCTTGCATCCAAAATTMapped 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|37188664|gb|CF608013.1|CF608013EST: TTCCAGCCCACAATGACAAGGAGGGAAGCAGCTCTTATTCTTGGAATCAG GGAAAGCACTCCAGCAGATAAGGTCAAGGAAGCACATAGGAAGGTGATGGT
genomic: TTCCAGCCCACAATGACAAGGAGGGAAGCAGCTCTTATTCTTGGAATCAGgtaccttgat ... ttttgaacagGGAAAGCACTCCAGCAGATAAGGTCAAGGAAGCACATAGGAAGGTGATGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaccctgtatttcacctattatttattaatttattttttaaacttttgaacagGGAAAGCACTCCAGCAGATAAGGTCAAGGAAGCACATAGGAAGGTGATGGTTGCAAATCACCCTGATGCAGGTGGCAGCCATTACCTTGCCTCAAAAATT
tattaat putative branch site (score: 2)
ctttt putative PPT
tatttcacctattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccaaaccacactccacttcccaagtttgatatattttttccttaattcaccctgtatttcacctattatttattaatttattttttaaacttttgaacagGGAAAGCACTCCAGCAGATAAGGTCAAGGAAGCACATAGGAAGGTGATGGTTGCAAATCACCCTGATGCAGGTGGCAGCCATTACCTTGCCTCAAAAATT
-caaacca
- - - - cactcca
- - - - - - - -cttccca
- - - - - - - - - - - - - - - - - - - - - - -ttcaccc