Sequence
atgc intronic sequence ATGC exonic sequenceGAGAGCAGGAAGCAAGGGAACCGGTGGCGGTTTTGTAGGTGGTGCAGGAGAAACTGAGCTTCAGCTTCAACGCCGAAGgtcttgtctaattgttggttaaccgaaagacttagtgcatggctctcttttctaatattaaatctatgcgttaaacaaaatcttgatgtaccag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G49725.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G49725.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA02G44930.1 (Glycine max), 5'ss of exon 5
GAGAGCAGGAAGCAAGGGAACCGGTGGCGGTTTTGTAGGTGGTGCAGGAGAAACTGAGCTTCAGCTTCAACGCCGAAGgtcttgtctaattgttggttaaccgaa-agacttagtgcatggctctct-tttctaatattaaatctatgcgttaaacaaaatcttgatgtaccag-------
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--GAG-AGGAAGTGGGGGAC------AAGGTTTTATGAGTGGTGCTGGAGAAACTGAACTTCAGCTTCAGCGACGAAGgtat-gactgacatttaattttttaaatacatttattctaaagtgatatatttctggttttc--ccaacaaatctcatggtttccttataaacctgtgttgtt
upper sequence: AT3G49725.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv00s0734g00020.t01 (Vitis vinifera), 5'ss of exon 6
GAGAGCAGGAAGCAAGGGAACCGGTGGCGGTTTTGTAGGTGGTGCAGGAGAAACTGAGCTTCAGCTTCAACGCCGAAGgtcttgtctaattgttggttaaccgaaagacttagtgcatggctctcttttctaatattaaatctatgcgt-taaacaaaat--cttgatgtac---cag-
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-------GAGAGGAAGCGG--TGGGCGTGGTTTTATTAGTGGTGCAGGAGAAACTGAACTTCAGCTTCAAAGACGAAGgt-ttgttccatagtatttcataaaattatcttgtttcccagatgctttagttgttattttctttgtgcacataaagattgttcctctatgtatgctcagtMapped 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|116481837|gb|EG524429.1|EG524429EST: GGTTTTGTAGGTGGTGCAGGAGAAACTGAGCTTCAGCTTCAACGCCGAAG AATATCAGACCGGAGGATTCGCTTGTTATCCCAAATTAAAGAAGCCCAGCG
genomic: GGTTTTGTAGGTGGTGCAGGAGAAACTGAGCTTCAGCTTCAACGCCGAAGgtcttgtcta ... gatgtaccagAATATCAGACCGGAGGATTCGCTTGTTATCCCAAATTAAAGAAGCCCAGCG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGAGCAGGAAGCAAGGGAACCGGTGGCGGTTTTGTAGGTGGTGCAGGAGAAACTGAGCTTCAGCTTCAACGCCGAAGgtcttgtctaattgttggttaaccgaaagacttagtgcatggctctcttttctaatattaaatctatgcgttaaacaaaatcttgatgtaccag
- - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT