Sequence
atgc intronic sequence ATGC exonic sequence...ctaattgtgtttagtaatcgggacttcaaacatcactcacaattttgctgcttaaaacgaaactttagtaaatactgatcaggagcatttaaaattgcagAGTATAGAACTGTTTCTGGTGTAGCAGGGCCACTCGTTATTCTTGAGAAAGTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G76030.1 (Arabidopsis thaliana), 3'ss of exon 2
-ctaattgtgtt-tagtaatcgggacttcaaacatcactcacaattttgctgcttaaaacgaaactttagta-aatactgat-caggagcatttaaaattgcagAGTATAGAACTGTTTCTGGTGTAGCAGGGCCACTCGTTATTCTTGAGAAAGTCAAG
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tatagggatattctagtactctggctcttt----ttgaccttgctgatgttgttaactatttttctttagtataagactgattcatgaatcttttgaattgcagAGTATAGAACTGTTTCTGGTGTTGCTGGACCATTGGTCATTCTTGACAAAGTGAAG
upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S425_12V6.1 (Physcomitrella patens), 3'ss of exon 1
ctaattgtgtttagtaatcgggacttcaaacatcactcacaattttgctgcttaaaacgaaactttagtaaatactgatcaggagcatttaaaatt----gcagAGTATAGAACTGTTTCTGGTGTAGCAGGGCCACTCGTTATTCTTGAGAAAGTCAAG
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---attttcttt-gtagtattgtgtgttggagcttcttgcagttgtatggtaatataccctgataagttgataagctcctaatggtattcacaatttcgtgcagAGTATCGAACTGTGTCTGGTGTAGCCGGTCCACTTGTCATCCTTGAGAAAGTCAAG
upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S85_75V6.1 (Physcomitrella patens), 3'ss of exon 2
ctaattgtgttt-agtaatcgggacttcaaacatcactcacaattttgctgcttaaaacgaa----actttagtaaatactgatcaggagcatttaaaattgcagAGTATAGAACTGTTTCTGGTGTAGCAGGGCCACTCGTTATTCTTGAGAAAGTCAAG
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-----tgtgttagagcttccgacgtttgcataagggcgttccttgaaggcggtgaagacgtttatcgctcttttagcttctgacgtgtatcataattttgtgcagAGTATCGAACTGTATCCGGTGTAGCAGGGCCACTTGTCATTCTAGAGAAAGTCAAGMapped 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|110706083|gb|EE083673.1|EE083673EST: GGCACAAAACATGCCAGATATGGAGGAAGGATCTCTACTCGTTGGAATGG AGTATAGAACTGTTTCTGGTGTAGCAGGGCCACTCGTTATTCTTGAAAAAG
genomic: GGCACAAAACATGCCAGATATGGAGGAAGGATCTCTACTCGTTGGAATGGgtgagtactc ... aaaattgcagAGTATAGAACTGTTTCTGGTGTAGCAGGGCCACTCGTTATTCTTGAGAAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctgcttaaaacgaaactttagtaaatactgatcaggagcatttaaaattgcagAGTATAGAACTGTTTCTGGTGTAGCAGGGCCACTCGTTATTCTTGAGAAAGTCAAG
tactgat putative branch site (score: 2)
aaactttagtaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctaattgtgtttagtaatcgggacttcaaacatcactcacaattttgctgcttaaaacgaaactttagtaaatactgatcaggagcatttaaaattgcagAGTATAGAACTGTTTCTGGTGTAGCAGGGCCACTCGTTATTCTTGAGAAAGTCAAG
- - - - - - - - - - - - - caaacat
- - - - - - - - - - - - - - - - -cactcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - aaacgaa