Sequence
atgc intronic sequence ATGC exonic sequenceAGCCAGTGCCCAAAATAAGCTAGAAGGCACAATAACTGCTTTTCAAAGTCGCATGGGTGCTTTGCTGTTCCTAATTTCTGCTTTACTCTCCCGAGGACTGgtatattgacgcaaccttgatccttattactcttttgtttgttaacatgtgtgcaaggaggcaaacctgaatgatagtaggggattgaacgaatttgaat...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G43690.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G43690.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA10G37000.1 (Glycine max), 5'ss of exon 5
AGCCAGTGCCCAAAATAAGCTAGAAGGCACAATAACTGCTTTTCAAAGTCGCATGGGTGCTTTGCTGTTCCTAATTTCTGCTTTACTCTCCCGAGGACTGgtatattgacgcaaccttgatccttattactcttttgtttgttaacatgtgtgcaaggaggcaaacctgaatgatagtaggggat--tgaacgaatttgaat
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AACAACTGCTTTGCAAAGGCTTGAAGCAAATCTTCCCCTTTTCCAAAGTCGAATGGGAGCATTGCTTTTCCTAATCTCTGCTTTACTTTCTCGAGGACTGgtatgtttgc-ctgcttcaagctctgctatttacttcagttgcattttacagtctctgaattcactgtctttcaaagcaagagatattgggctatttcttt-
upper sequence: AT1G43690.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA20G30610.1 (Glycine max), 5'ss of exon 5
AGCCAGTGCCCAAAATAAGCTAGAAGGCACAATAACTGCTTTTCAAAGTCGCATGGGTGCTTTGCTGTTCCTAATTTCTGCTTTACTCTCCCGAGGACTGgtatattgacgcaaccttgatccttattactcttttgtttgttaacatgtgtgcaaggaggcaaacctgaatgatagtaggggat--tgaacgaatttgaat
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AACAAATGCATTGCAAAGGCTTGAAGCAAATCTTCCCCTATTCCAAAGTCGAATGGGAGCATTGCTTTTCCTAATCTCTGCTTTACTTTCTCGGGGACTGgtatgtttgc-ctgcttcaagctctgttatctacttcagttgcattttacagtctctgaatttactgtcttttaaagctagagatattgggctatttcttt-
upper sequence: AT1G43690.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv18s0072g00780.t01 (Vitis vinifera), 5'ss of exon 5
AGCCAGTGCCCAAAATAAGCTAGAAGGCACAATAACTGCTTTTCAAAGTCGCATGGGTGCTTTGCTGTTCCTAATTTCTGCTTTACTCTCCCGAGGACTGgtatattgacgcaaccttgatccttattactct---tttgtttgttaacatgtgtgcaaggaggcaaacctgaa---tgatagtaggggattgaacgaatttgaat
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TGCAAATGCATACAAGAGGCTCGAAGCGATGATTCCTGTTTTCCAAAGTCGTATGGGGGCACTGCTATTCCTTATTTCTGCTTTACTCTCTCGAGGATTGgtatgc-aagttaatcagaagacttatctttttaactttacaagtgatcttatttttgtcaattttggccacagcctttttaatgtgatattactcggtgt-----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|164156923|gb|ES084627.1|ES084627EST: GCTTTGCTGTTCCTAATTTCTGCTTTACTCTCCCGAGGACTG GATTCAGTTCAAGCCGACAGGGATGATCCAAACCTCCCCCTAGTAACTGCA
genomic: GCTTTGCTGTTCCTAATTTCTGCTTTACTCTCCCGAGGACTGgtatattgac ... tgatgaacagGATTCAGTTCAAGCCGACAGGGATGATCCAAACCTCCCCCTAGTAACTGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGCCAGTGCCCAAAATAAGCTAGAAGGCACAATAACTGCTTTTCAAAGTCGCATGGGTGCTTTGCTGTTCCTAATTTCTGCTTTACTCTCCCGAGGACTGgtatattgacgcaaccttgatccttattactcttttgtttgttaacatgtgtgcaaggaggcaaacctgaatgatagtaggggattgaacgaatttgaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttgatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaggcaaa