Sequence
atgc intronic sequence ATGC exonic sequencegtttgtctcaatctttgtttaagttttgttcatgttagtgtaatgttaatattgaaaatcatatattctcattgtcatgtgctttacttctgcagACTTTTTCAACTGGAATAGAGTTAAGCTTCGTTACTGCGATGGCGCTTCTTTCAGTGGAGATGGCCAGAATCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G05910.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G05910.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA19G41240.1 (Glycine max), 3'ss of exon 3
-----------gtttgtctcaatctttg-----tttaagttttgttcatgttagtgtaatgt-taatattgaaaatcatatattctcattgtcatgtgctttacttctgcagACTTTTTCAACTGGAATAGAGTTAAGCTTCGTTACTGCGATGGCGCTTCTTTCAGTGGAGATGGCCAGAATCAG
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gtttcccttcaattgaactaactatctggagtgctcaaattctgctctttttcttttttcttgtcataggcatagccgttt-tgctcatgtttttgtttctcatgtttgtagATTTTTTCAATTGGAATAGAGTAAAGCTTCGTTATTGTGATGGCGCCTCATTTACTGGGGATAGTGAAGATGAG
upper sequence: AT3G05910.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA03G38650.1 (Glycine max), 3'ss of exon 3
-----------gtttgtctcaatctttg------tttaagttttgttcatgttagtgtaatgttaatattgaaaatcatatattctcattgtcatgtgctttacttctgcagACTTTTTCAACTGGAATAGAGTTAAGCTTCGTTACTGCGATGGCGCTTCTTTCAGTGGAGATGGCCAGAATCAG
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gtttccattcaattaaactaactatctggagtgctcaaattcttgtatttgcttttttcttgtcacaggcattagccgttt-tgctcatgttattgttcctcgtgtttgtagATTTTTTCAATTGGAATAGAGTAAAGCTTCGTTATTGTGATGGTGCCTCATTTACTGGGGATAGTGAAGATGAG
upper sequence: AT3G05910.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv14s0060g00230.t01 (Vitis vinifera), 3'ss of exon 3
-gtttgtctcaatctttgt-ttaagtttt-------gttcatgttagtgtaatgttaatattgaaaatcatatattctcattgtcatgtg----ctttacttc----tgcagACTTTTTCAACTGGAATAGAGTTAAGCTTCGTTACTGCGATGGCGCTTCTTTCAGTGGAGATGGCCAGAATCAG
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gtttcttctcaaactttatgttgacttgtcaagacaaatcaactgatgatattctccatttttagtttctccagatttttctgtcatgaaaagtttctaattccatgtgcagATTTTTTCAACTGGAATAGAGTAAAGCTTCGTTATTGTGATGGTGCCTCTTTTACTGGTGACAGCCAAAATCAGMapped 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|124751112|gb|EH841242.1|EH841242EST: ACAGCTTCAGTTTACAGGAATACTGAGTGACAAAGCTCAAGAAAATCCTG ACTTTTTCAACTGGAATAGAAGTTAAGCTTCGTTACTGCGATGGCGCT
genomic: ACAGCTTCAGTTTACAGGAATACTGAGTGACAAAGCTCAAGAAAATCCTGgtttgtctca ... acttctgcagACTTTTTCAACTGGAATAGA-GTTAAGCTTCGTTACTGCGATGGCGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatgttaatattgaaaatcatatattctcattgtcatgtgctttacttctgcagACTTTTTCAACTGGAATAGAGTTAAGCTTCGTTACTGCGATGGCGCTTCTTTCAGTGGAGATGGCCAGAATCAG
tgttaat putative branch site (score: 3)
ctttacttct putative PPT
ttaatattgaaaatca TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtctcaatctttgtttaagttttgttcatgttagtgtaatgttaatattgaaaatcatatattctcattgtcatgtgctttacttctgcagACTTTTTCAACTGGAATAGAGTTAAGCTTCGTTACTGCGATGGCGCTTCTTTCAGTGGAGATGGCCAGAATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG