Sequence
atgc intronic sequence ATGC exonic sequenceAGCATACGAGCTTTGGGGGCTCCTGCATTGCTTCTATCTCTTGCTATGCAAGGCATCTTTCGTGGATTCAAGGACACCAAAACTCCTCTCTTTGCCACTGgtaattaagttgttaacttagatcatctttaatgatcactctccttacttcttataatattttgccttaatgcgtgaaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G08040.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G08040.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA15G43020.1 (Glycine max), 5'ss of exon 6
AGCATACGAGCTTTGGGGGCTCCTGCATTGCTTCTATCTCTTGCTATGCAAGGCATCTTTCGTGGATTCAAGGACACCAAAACTCCTCTCTTTGCCACTGgtaa--ttaagttgttaact-----tagatcatctttaatgatcactctccttacttcttataatattttgccttaatgcgtg--aaacag---------
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AGATTGAGATCATTAGGTGCTCCTGCAGTGCTTCTCTCCTTGGCCATGCAAGGAATCTTTCGAGGATTCAAGGACACTACAACTCCTTTATATGTTATTCgtaggttcaaatgatccattgtcatgaaataaagcctaaatagagacaaagtgtgaaagaatgaaaatgcatgttaaagcatgctagtcaaataaattta
upper sequence: AT3G08040.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA09G15550.1 (Glycine max), 5'ss of exon 6
AGCATACGAGCTTTGGGGGCTCCTGCATTGCTTCTATCTCTTGCTATGCAAGGCATCTTTCGTGGATTCAAGGACACCAAAACTCCTCTCTTTGCCACTGgtaattaagttgttaacttagatcatctttaatgatcactctccttacttcttataatattttgccttaatgcgtgaaacag---------------------
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AGATTGAGATCATTAGGTGCTCCAGCAGTGCTTTTGTCCTTGGCCATGCAAGGAATCTTTCGAGGATTCAAGGACACTACAACTCCTTTATATGTTATTCgtaggttca--aatgatccatattttcttttgaaatgaagc-ctttagagaatgtgtgaaagaatgaaaatgcataaattaaaagcatgctagtcaaatttaaMapped 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|86068041|gb|DR363798.1|DR363798EST: AGGCATCTTTCGTGGATTCAAGGACACCAAAACTCCTCTCTTTGCCACTG TCGTAGCAGATGTTATCAACATAGTTCTCGACCCCATCTTCATTTTTGNGC
genomic: AGGCATCTTTCGTGGATTCAAGGACACCAAAACTCCTCTCTTTGCCACTGgtaattaagt ... cgtgaaacagTCGTAGCAGATGTTATCAACATAGTTCTCGACCCCATCTTCATTTTTGTGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGCATACGAGCTTTGGGGGCTCCTGCATTGCTTCTATCTCTTGCTATGCAAGGCATCTTTCGTGGATTCAAGGACACCAAAACTCCTCTCTTTGCCACTGgtaattaagttgttaacttagatcatctttaatgatcactctccttacttcttataatattttgccttaatgcgtgaaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC