Sequence
atgc intronic sequence ATGC exonic sequenceGCCATAATATTTTCTTAACCATTGGCATTGTGTTTATTCGTAGGTTTCTGACTTTGGAAGACTCTTTCTTGCTTGAAAACCGAGCAACCTTGAGAGCAATgtaggttccttagttctcagcaatattgaattcttactgattaggctccatagtgaccattttcttctattgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G29890.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G29890.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA05G25780.2 (Glycine max), 5'ss of exon 5
GCCATAATATTTTCTTAACCATTGGCATTGTGTTTATTCGTAGGTTTCTGACTTTGGAAGACTCTTTCTTGCTTGAAAACCGAGCAACCTTGAGAGCAATgtaggttcc---ttagttctcagcaatattgaat---tcttactgattaggctccatagtgaccattttcttctattgtag
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-------------------------------------------GTTTTTGACCATGGATGATTCTTTCTTGTTAGAAAATCGAGCAACTTTGAGAGCAATgtatgtcatcattttgtgaatgaccaaatataatctgttccactctctgaattctgaagatgtatttactatttttttcag
upper sequence: AT1G29890.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv10s0003g02820.t01 (Vitis vinifera), 5'ss of exon 4
GCCATAATATTTTCTTAACCATTGGCATTGTGTTTATTCGTAGGTTTCTGACTTTGGAAGACTCTTTCTTGCTTGAAAACCGAGCAACCTTGAGAGCAATgtaggttccttagttct-----cagcaatattgaattcttactga--ttaggctccatagtgaccattttcttctattgtag-------
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-------------------------------------------GTTTTTAACAATGGATGACTCCTTCTTGCTGGAAAACCGATTAACTTTGAGAGCAATgtaagtcatatcattttgtggatagtgat-taaaatacttggtagctttttgttccttcttacacttcaaaatactttatatcatgtagMapped 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|163970813|gb|EL996644.1|EL996644EST: TTGCTTGAAAACCGAGCAACCTTGAGAGCAAT GGCTGAGTTTGGAGCAATTCTTTTATATTTTTATATTTGTGATCGAACTAG
genomic: TTGCTTGAAAACCGAGCAACCTTGAGAGCAATgtaggttcct ... tctattgtagGGCTGAGTTTGGAGCAATTCTTTTATATTTTTATATTTGTGATCGAACTAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCCATAATATTTTCTTAACCATTGGCATTGTGTTTATTCGTAGGTTTCTGACTTTGGAAGACTCTTTCTTGCTTGAAAACCGAGCAACCTTGAGAGCAATgtaggttccttagttctcagcaatattgaattcttactgattaggctccatagtgaccattttcttctattgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA