Sequence
atgc intronic sequence ATGC exonic sequenceTAAACCGATCCAATCCAAACATCTCGGAGCTTTGTTTCCTTAAAACATGTCATCTCTGCAATAAACAACTCCATCAAGACAAAGATGTTTACATGTACAGgtacgatatttttttttttttattactatattatatactctttgtaaacgaaagatgttctgttcttgattctcaattttttttttttgttgaaaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G53903.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G53903.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA07G05010.1 (Glycine max), 5'ss of exon 1
---TAAACCGATCCAATCCAAACATCTCGGAGCTTTGTTTCCTTAAAACATGTCATCTCTGCAATAAACAACTCCATCAAGACAAAGATGTTTACATGTACAGgtacgat---atttttttttttttattactatattatatactctttgtaaacgaaagatgttctgttcttgattctcaattttttttttttgttgaaaacag
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AGGCAAACCAA--CAATCCATCCCTCA-AGACTTTTGCTTCCTTAAAACTTGCAATCTATGCAATAAGCAACTCAGTCCAGACAAAGATATTTACATGTACAGgtataaccaaactcccaatactctctacctacgcatcat-ttcttaattaaacattaatatcattatctt-atgctaaaatttaacatatcttggatcactt
upper sequence: AT1G53903.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA16G01550.1 (Glycine max), 5'ss of exon 1
---TAAACCGATCCAATCCAAACATCTCGGAGCTTTGTTTCCTTAAAACATGTCATCTCTGCAATAAACAACTCCATCAAGACAAAGATGTTTACATGTACAGgtacgatatttttttttttttattactatatta-tatactctttgtaaacgaaagatgttctgtt----cttgattctcaattttttttttttgttgaaaacag
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AGACAAACCAA--CAATCCATCCCTCA-AGACTTTTGCTTCCTTAAAACTTGCAATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAGgtat-ataagtgtataaccaaactcctaattaagtctactctctacctacacatcatttcttaatgaaacattaatatcattaattatcttatgctaaaat---
upper sequence: AT1G53903.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA05G21240.1 (Glycine max), 5'ss of exon 1
---TAAACCGATCCAATCCAAACATCTCGGAGCTTTGTTTCCTTAAAACATGTCATCTCTGCAATAAACAACTCCATCAAGACAAAGATGTTTACATGTACAGgtacgat---atttttttttttttattactatattatatactctttgtaaacgaaagatgttctgttcttgattctcaattttttttttttgttgaaaacag
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AGGCAAACCAA--CAATCCATCCCTCA-AGACTTATGCTTCCTTAAAACTTGCAATCTATGCAATAAGCAACTCACTCCAAACAAAGATATTTACATGTACAGgtataaccaaactcccaatactctctacctacgcatcat-ttcttaattaaacattaatatcattatcttatgctaaaatttaacattaaaattaacatct-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|19878688|gb|AU239519.1|AU239519EST: CATCTCTGCAATAAACAACTCCATCAAGACAAAGATGTTTACATGTACAG AGGAGATTTGGGATTTTGTAGTAGAGAGTGCAGAGAAAGTCAGATGTTGAT
genomic: CATCTCTGCAATAAACAACTCCATCAAGACAAAGATGTTTACATGTACAGgtacgatatt ... ttgaaaacagAGGAGATTTGGGATTTTGTAGTAGAGAGTGCAGAGAAAGTCAGATGTTGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAAACCGATCCAATCCAAACATCTCGGAGCTTTGTTTCCTTAAAACATGTCATCTCTGCAATAAACAACTCCATCAAGACAAAGATGTTTACATGTACAGgtacgatatttttttttttttattactatattatatactctttgtaaacgaaagatgttctgttcttgattctcaattttttttttttgttgaaaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG