Sequence
atgc intronic sequence ATGC exonic sequencegttccgattcgtaaactcctatttgattgcaaatattagaatggatgatttttttgtaattgtaattgtttatgtggtatagGCATTGTTTAATTCATTGCCACTTGAGGATTATAAGAATGCAACGTTGGTTTTAGGAGGTGATGGTCGTTACTTTAACAAAGAAGCTTCACAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G51820.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G51820.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G38590.1 (Glycine max), 3'ss of exon 3
--gttccgattcgtaaactcctatttgattgcaaatattagaatggatgatttttttgtaattgtaattgtttatgtgg-tatagGCATTGTTTAATTCATTGCCACTTGAGGATTATAAGAATGCAACGTTGGTTTTAGGAGGTGATGGTCGTTACTTTAACAAAGAAGCTTCACAG
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gtctgtagaattccatgcaac-gtatgattgcgtgatttatgcattttgcttttcatgtaagtgaaaat-tctgtgcatctgtagGCTCTGTTTAATTCATTGCCACCGGAGGACTACAAGAATGGTTTGTTGGTGTTGGGAGGTGATGGTCGATACTTTAATCAGGAAGCTGCACAG
upper sequence: AT5G51820.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G29230.1 (Glycine max), 3'ss of exon 3
gttccgattcgtaaactcctatttgat-tgcaaatattagaatggatgatttt-tttgtaattgtaattgtttatgtgg-tatagGCATTGTTTAATTCATTGCCACTTGAGGATTATAAGAATGCAACGTTGGTTTTAGGAGGTGATGGTCGTTACTTTAACAAAGAAGCTTCACAG
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------gtttgtagaattccatgcaatgtatgattgcatgaattatgcattttgcttgtaagtgaaaat-tctgtgcatctgtagGCCCTGTTTAATTCATTGCCTCCCGAGGATTACAAGAATGGCTTGTTGGTGTTGGGAGGTGATGGGCGATACTTTAATCGGGAAGCTGCACAG
upper sequence: AT5G51820.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv16s0022g02320.t01 (Vitis vinifera), 3'ss of exon 3
---------gttccgattc-gtaaactcctatttgattgcaa-atattagaatggatg--attt---ttttgtaattgtaattgtttatgtggtatagGCATTGTTTAATTCATTGCCACTTGAGGATTATAAGAATGCAACGTTGGTTTTAGGAGGTGATGGTCGTTACTTTAACAAAGAAGCTTCACAG
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gtttgaattattgtgtttttgtaattttgaatttggaaatgatgttatggggtttatgcaatttgggcttgataaagatgagggttttggatttatagGCGCTGTTCAATTCATTGCCACCTGAGGATTACAAGGATGGGGTGTTGGTTTTAGGCGGTGATGGCCGATATTTCAACCGGGAAGCTGCACAGMapped 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|125077170|gb|EL140057.1|EL140057EST: TTTTCATGGAAGATAATTATTTAGCCAACTGGATTCAG GCATTGTTTAATTCATTGCCACTTGAGGATTATAAGAAAATGCAACGTTGG
genomic: TTTTCATGGAAGATAATTATTTAGCCAACTGGATTCAGgttccgattc ... tgtggtatagGCATTGTTTAATTCATTGCCACTTGAGGATTATAAGAA--TGCAACGTTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcaaatattagaatggatgatttttttgtaattgtaattgtttatgtggtatagGCATTGTTTAATTCATTGCCACTTGAGGATTATAAGAATGCAACGTTGGTTTTAGGAGGTGATGGTCGTTACTTTAACAAAGAAGCTTCACAG
atgatttttttgtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttccgattcgtaaactcctatttgattgcaaatattagaatggatgatttttttgtaattgtaattgtttatgtggtatagGCATTGTTTAATTCATTGCCACTTGAGGATTATAAGAATGCAACGTTGGTTTTAGGAGGTGATGGTCGTTACTTTAACAAAGAAGCTTCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC