Sequence
atgc intronic sequence ATGC exonic sequenceAACAAGCCGGAAAAGTCCCTGACGTTTTCTACTGCCTTAAGCTCTTAGAAGCCACAGGAATCTCCACAGTTCCAGGCTCTGGATTTGGACAAAAAGAAGGgtagaaaaaaaccctctgtgttttacagtttcatgttattcttgcagcaagctcatttttgtttgtctgtttgtttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G70580.2 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G70580.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os07g01760.1 (Oryza sativa), 5'ss of exon 11
AACAAGCCGGAAAAGTCCCTGACGTTTTCTACTGCCTTAAGCTCTTAGAAGCCACAGGAATCTCCACAGTTCCAGGCTCTGGATTTGGACAAAAAGAAGGgtagaaaaaaaccctctgtgttttacagtttcatgttattcttgcagcaagctcatttttgtttgtctgtt-tgtttcag--------------------
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AAAGGGCTGGCAAAGCGGCCGATGTTTTCTACTGCCTCAAGCTTCTTGAAGCAACTGGAATATCCACTGTTCCAGGGTCAGGTTTCGGACAAAAAGAAGGgtaggtgtttcccttacatatacatatgtatcttcaaagtttcataaacatcagagatctctcaactagacatgactcaggagtacctgaatttatcctt
upper sequence: AT1G70580.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA01G03260.2 (Glycine max), 5'ss of exon 13
AACAAGCCGGAAAAGTCCCTGACGTTTTCTACTGCCTTAAGCTCTTAGAAGCCACAGGAATCTCCACAGTTCCAGGCTCTGGATTTGGACAAAAAGAAGGgtagaaa-----aaa---accctctg-tgttt-tacagtttcatgttattcttgc----------agcaagctcattt--ttgtttgtctgtttgtttcag
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AACAGGCTGCAAAGGTTCCAGATGTTTTCTACTGCCTCAAACTTTTGGAAGCCACTGGCATATCCACTGTTCCTGGTTCAGGATTTGGACAGAGAGAAGGgtacatacttatacatttattttctgatgtttataaattatccccttttctttgcctttctttagagtgatcccacttgcctattcccatgtttgtcatg-
upper sequence: AT1G70580.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA02G04320.1 (Glycine max), 5'ss of exon 14
AACAAGCCGGAAAAGTCCCTGACGTTTTCTACTGCCTTAAGCTCTTAGAAGCCACAGGAATCTCCACAGTTCCAGGCTCTGGATTTGGACAAAAAGAAGGgtagaaa-----aaa---accctc-tgtgttttacagtttcatgttattc--ttgcagcaagctcatttttgtttgtctgtttgtttcag----------
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AACAGGCTGGAAAGGTTCCAGATGTTTACTACTGCCTCAAGCTTTTGGAAGCCACTGGCATATCCACTGTTCCTGGTTCAGGATTTGGTCAGAAAGAAGGgtacaaacttatacatttattctcatgtttatccccttttcttttcctttctttagagtgattccacatgcctattcctatggttttcatgcaatgagaa
upper sequence: AT1G70580.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: EFJ30498 (Selaginella moellendorffii), 5'ss of exon 12
AACAAGCCGGAAAAGTCCCTGACGTTTTCTACTGCCTTAAGCTCTTAGAAGCCACAGGAATCTCCACAGTTCCAGGCTCTGGATTTGGACAAAAAGAAGGgtagaaa-----aaaaccctctgtgttttacagtttcatgttattcttgcagcaagctcatttttgtttgtctgtttgtttcag
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CTCAGGCAGGAAAAGCAGCAGATGTTTTCTACTGCCTCAAGCTCTTGGAGGCGACGGGAATTTCCACGGTCCCCGGCTCTGGATTCGGCCAAAAAGAAGGgtgagaactttggaaactcttttctctcaacacaagctt-tcgtttttgc-gtag-----------------------------Mapped 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|86084463|gb|DR380222.1|DR380222EST: GCCACAGGAATCTCCACAGTTCCAGGCTCTGGATTTGGACAAAAAGAAGG GGTGTTTCATTTAAGGACAACAATTCTGCCAGCAGAAGAAGAAATGCCAGA
genomic: GCCACAGGAATCTCCACAGTTCCAGGCTCTGGATTTGGACAAAAAGAAGGgtagaaaaaa ... tttgtttcagGGTGTTTCATTTAAGGACAACAATTCTGCCAGCAGAAGAAGAAATGCCAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AACAAGCCGGAAAAGTCCCTGACGTTTTCTACTGCCTTAAGCTCTTAGAAGCCACAGGAATCTCCACAGTTCCAGGCTCTGGATTTGGACAAAAAGAAGGgtagaaaaaaaccctctgtgttttacagtttcatgttattcttgcagcaagctcatttttgtttgtctgtttgtttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG