Sequence
atgc intronic sequence ATGC exonic sequenceAGAGGGTGGTGTTGCGTCTGGATTTAAAAAACCGGAGGAGGAGGAGTTTGAAACCCGGCTGTATACCTGCAAAGGAAAACGTGCTGTCCACTTGAAGCAGgttttctttgctgcagatttttagaagtgttacactctcttcgcatgagtgtttaatatgtatatacttatctcttttcttttgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G57410.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G57410.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA03G29280.1 (Glycine max), 5'ss of exon 4
AGAGGGTGGTGTTGCGTCTGGATTTAAAAAACCGGAGGAGGAGGAGTTTGAAACCCGGCTGTATACCTGCAAAGGAAAACGTGCTGTCCACTTGAAGCAGgttttctttgctgcagatttttagaagtgttacactctcttcgcatgagtgtttaatatgtatat-acttatctcttttcttttgtag
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AGAGGGAGGTGTTGCATCGGGATTTAAAAAACCTGAAGAAGAGGAGTTTGAAACACGTTTGTATGTATGCAGAGGAAAAAGAGTTGTCAGAATAAAACAGgcatagtgttctcta----ttcatgtacttttcaaatgcagtgcacattcattgactaaaaatgtgatacaaagttttccttatgcag
upper sequence: AT3G57410.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA10G21350.2 (Glycine max), 5'ss of exon 4
AGAGGGTGGTGTTGCGTCTGGATTTAAAAAACCGGAGGAGGAGGAGTTTGAAACCCGGCTGTATACCTGCAAAGGAAAACGTGCTGTCCACTTGAAGCAGgttt--tctttgctgcagatttttagaagtgttacactctcttcgcatgagtgtttaatatgtatatacttatctcttttcttttgtag
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AGAGGGTGGAGTTGCATCTGGGTTTAAAAAACCTGAAGAAGAGGAGTTTGAAACACGTTTGTATGTATGCAGAGGGAAAAGAGTTGTAAGATTGAGACAGgtatagtcttctctgttattcatgaacttcatta-attcagtacgcatgaa-gtttgacattt-tgctttgacag--------------
upper sequence: AT3G57410.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA19G32010.1 (Glycine max), 5'ss of exon 5
---------------AGAGGGTGGTGTTGCGTCTGGATTTAAAAAACCGGAGGAGGAGGAGTTTGAAACCCGGCTGTATACCTGCAAAGGAAAACGTGCTGTCCACTTGAAGCAGgttttctttgctgcagatttttagaagtgttacactctcttcgcatgagtgtttaatatgtatatacttatctcttttcttttgtag
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ATGTATAATTCCATTAGAGGGGGGTATCGCATCTGGATTTAAAAAACCTGAAGAAGAGGAGTTTGAAACACGTTTATATGTATGCAGAGGAAAAAGAGTTgtcagaataaaacaggcacaatgttctcta--ttcatgtacttttcaaattcagtgcacattcgttgcctaaaaatgtg-atacaaagttttgcttatgcag
upper sequence: AT3G57410.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA02G32100.1 (Glycine max), 5'ss of exon 3
AGAGGGTGGTGTTGCGTCTGGATTTAAAAAACCGGAGGAGGAGGAGTTTGAAACCCGGCTGTATACCTGCAAAGGAAAACGTGCTGTCCACTTGAAGCAGgttttctttgctgcag-atttttagaagtgttacactctcttcgcatgagtgtttaatatgtatatacttatctcttttcttttgtag
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GGAGGGTGGAGTTGCATCTGGGTTTAAAAAACCTGAAGAAGAGAAGTTTGAAACATGTTTGTATGTATGCAGAGGGAAAAGAGTTGTTAGATTGAGACAGgtatagtgttctctattattcatgaacgtcataaattcagtgcgcatgaa-gtttgacattttggt-ttgatag--------------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|116482622|gb|EG525214.1|EG525214EST: AAACCCGGCTGTATACCTGCAAAGGAAAACGTGCTGTCCACTTGAAGCAG GTTCCTTTTGCACGCTCATCTCTGAATCATGATGATGTGTTTATCTTGGAC
genomic: AAACCCGGCTGTATACCTGCAAAGGAAAACGTGCTGTCCACTTGAAGCAGgttttctttg ... tcttttgtagGTTCCTTTTGCACGCTCATCTCTGAATCATGATGATGTGTTTATCTTGGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAGGGTGGTGTTGCGTCTGGATTTAAAAAACCGGAGGAGGAGGAGTTTGAAACCCGGCTGTATACCTGCAAAGGAAAACGTGCTGTCCACTTGAAGCAGgttttctttgctgcagatttttagaagtgttacactctcttcgcatgagtgtttaatatgtatatacttatctcttttcttttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC