Sequence
atgc intronic sequence ATGC exonic sequenceGCGCTGCTGTTGGATTCAAGTTGGACAGTTTATCGAAATTAAGTGATACACGTGCTGCTAACAGCAAGATGACTCTCATGCATTATCTTTGCAAGgtaaatgacaatcaaaaagagcaggatctagtttctgatgaaggttattataaaaagtggtctggatcaggagagatacataattctgaaactctcatctttctttttccag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G07740.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G07740.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA05G00820.1 (Glycine max), 5'ss of exon 13
GCGCTGCTGTTGGATTCAAGTTGGACAGTTTATCGAAATTAAGTGATACACGTGCTGCTAACAGCAAGATGACTCTCATGCATTATCTTTGCAAGgta--aatgacaatcaaaa-agagcaggatctagtttc--tgatgaaggttattataaaaagtggtctggatcaggagagatacataattctgaaactctcatctttctttttccag
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GATCTGCTGTTGGATTCAAGTTGGATAGTCTTTTAAAGCTCACTGACACTCGTGCTTCTAACAGTAAAATGACACTGATGCATTATCTTTGCAAGgtataagtgtcaattgcatcaaatgaagatactgtttcattgctaacctttttttccctcccctaattggctctag-----------------------------------------
upper sequence: AT5G07740.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA06G21190.1 (Glycine max), 5'ss of exon 15
GCGCTGCTGTTGGATTCAAGTTGGACAGTTTATCGAAATTAAGTGATACACGTGCTGCTAACAGCAAGATGACTCTCATGCATTATCTTTGCAAGgta--aatgacaatcaaaa-agagcaggatctagtttctgatgaaggttattataaaaagtggtctggatcaggagagatacataattctgaaactctcatctttctttttccag
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GATCTGCTGTTGGATTCAAGTTAGATAGTCTTCTAAAACTAACTGAAACTCGTGCTTCAAACAGTAAAATGACACTCATGCATTTTCTTTGCAAGgtaatagtcttagttgcattaaatgaagattttactggtggtttacctttctgtttctttctatttgaactccag----------------------------------------
upper sequence: AT5G07740.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA17G11100.1 (Glycine max), 5'ss of exon 15
GCGCTGCTGTTGGATTCAAGTTGGACAGTTTATCGAAATTAAGTGATACACGTGCTGCTAACAGCAAGATGACTCTCATGCATTATCTTTGCAAGgta---aatgacaatca-aaaagagcaggatctagttt--ctgatgaaggttattataaaaagtggtctggatcaggagagatacataattctgaaactctcatctttctttttccag
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GATCTGCAGTTGGATTCAAGTTGGATAGTCTTTTAAAGCTCACTGACACTCGTGCTTCTAACAGTAAAATGACACTGATGCATTATCTTTGCAAGgtagaaagtgtcaattgcaaaaaatgaagatattgtctggttgctaaccttttttttccttccctctttggctctag-----------------------------------------
upper sequence: AT5G07740.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv17s0000g06640.t01 (Vitis vinifera), 5'ss of exon 14
GCGCTGCTGTTGGATTCAAGTTGGACAGTTTATCGAAATTAAGTGATACACGTGCTGCTAACAGCAAGATGACTCTCATGCATTATCTTTGCAAGgtaaatgacaatcaaaaagagcaggatctagtttctgatgaaggttattataaaaagtggtctggatcaggagagatacataattctgaaactctcatctttctttttccag
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GTTCTGCGGTTGGATTCAAGTTGGACAGTCTTTTAAAACTCACTGATACACGTGCCTCTAACAGCAAGATGACACTTATGCATTATCTTTGTAAGgtaa--ggtggtt-------gcatattatgtttccttgtggtgcctctgaaatcaggtctttctggtgcagcagaatatcttatactctaaatttctttctggtgcaac---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|125233496|gb|EL247581.1|EL247581EST: CAGCAAGATGACTCTCATGCATTATCTTTGCAAG GTCCTTGCTTCAAAGGCATCAGTTCTACTGGACTTCCCCAAGGATCTTGAA
genomic: CAGCAAGATGACTCTCATGCATTATCTTTGCAAGgtaaatgaca ... ctttttccagGTCCTTGCTTCAAAGGCATCAGTTCTACTGGACTTCCCCAAGGATCTTGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCGCTGCTGTTGGATTCAAGTTGGACAGTTTATCGAAATTAAGTGATACACGTGCTGCTAACAGCAAGATGACTCTCATGCATTATCTTTGCAAGgtaaatgacaatcaaaaagagcaggatctagtttctgatgaaggttattataaaaagtggtctggatcaggagagatacataattctgaaactctcatctttctttttccag
- - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG