Sequence
atgc intronic sequence ATGC exonic sequenceTTGTTACAGTCTTCCTGGTTACAAAACCCGTTATGATGATGTTGATCTCATTACCATTCGTGAGAACACTGAAGGAGAGTACAGTGGGCTTGAACACCAGgttagtctattgttctgtcattttagtgaatctgtatctagtatcatttttagagccatgttgatgatttgtcatttttatttgctag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G09810.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G09810.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA10G06590.2 (Glycine max), 5'ss of exon 2
TTGTTACAGTCTTCCTGGTTACAAAACCCGTTATGATGATGTTGATCTCATTACCATTCGTGAGAACACTGAAGGAGAGTACAGTGGGCTTGAACACCAGgttagtctattgttctgtcattttagtgaatctgtatctagtatcattttta----gagccatgttgatgatttgtcatttttatttgctag
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TTGCTACAGTCTTCCAGGCTACAAAACTCGATATGATAATGTCAATCTAATTACAATTCGTGAAAATACGGAAGGCGAGTACAGTGGACTTGAACATCAGgtaaattt----------cacaacaattgatgt-tacatactatcattttaattctgatcaatataatttgtttagcatttatgggtctcag
upper sequence: AT3G09810.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA13G20790.1 (Glycine max), 5'ss of exon 2
TTGTTACAGTCTTCCTGGTTACAAAACCCGTTATGATGATGTTGATCTCATTACCATTCGTGAGAACACTGAAGGAGAGTACAGTGGGCTTGAACACCAGgttagtctattgttctgtcattttagtgaatctgtatctagtatcatttttagagccatgttgatgatttgtcatttttatttgctag
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TTGCTACAGTCTTCCAGGCTACAAAACTCGGTATGATAATGTCAATCTAATCACAATTCGTGAAAATACGGAAGGCGAGTACAGTGGACTTGAACATCAGgtaaattt-----cacaacaattta-tgcacgtac-tatcatctgaattct-gatcaatataatttgtttagcatttttgggtttcag
upper sequence: AT3G09810.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv08s0040g01700.t01 (Vitis vinifera), 5'ss of exon 2
TTGTTACAGTCTTCCTGGTTACAAAACCCGTTATGATGATGTTGATCTCATTACCATTCGTGAGAACACTGAAGGAGAGTACAGTGGGCTTGAACACCAGgttagtctattgttctgtcattttagtgaatctgtatctagtatcatttttagagccatgttgatgatttgtcatttttatttgctag
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TTGCTACAGTCTCCCTGGGTATAAAACTCGGTATGATGACGTAGATCTCATCACTATCCGTGAAAACACAGAAGGGGAGTACAGTGGACTTGAACATCAAgtgagt-tgttttcaagaggatttaatgctcatctgacaaatacttaatgcatagaaatttgaaggatttcttgtaattggt-gccag
upper sequence: AT3G09810.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S83_44V6.1 (Physcomitrella patens), 5'ss of exon 2
TTGTTACAGTCTTCCTGGTTACAAAACCCGTTATGATGATGTTGATCTCATTACCATTCGTGAGAACACTGAAGGAGAGTACAGTGGGCTTGAACACCAGgttagtctattgttctgtcattttagtgaatctgtatctagtatca----tttttagagccatgttgatgatttgtcatttttatttgctag----------
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ATGTCTGAGTATTCCAGGATATAAGACACGGTATGACAATGTTGACCTGGTCACCATTCGAGAAAACACTGAAGGCGAGTACAGTGGGTTGGAACATCAGgtgggttctgaatgccgtaagtctc-tgaggctatatttcgaattactctttctttgggtcgtagaggaaatgagtt-tcaatactttcaggatcaggtgtaMapped 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|19875181|gb|AU236012.1|AU236012EST: TTACCATTCGTGAGAACACTGAAGGAGAGTACAGTGGGCTTGAACACCAG GNCGTCAAGGGTGTNGTGGAAAGGTCTTAAAAATTATTACCCGTAAGGCGA
genomic: TTACCATTCGTGAGAACACTGAAGGAGAGTACAGTGGGCTTGAACACCAGgttagtctat ... tatttgctagGTCGTCAAGGGTGTAGTGGAAAG-TCTTAAAA-TTATTACCCGTAAGGCGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGTTACAGTCTTCCTGGTTACAAAACCCGTTATGATGATGTTGATCTCATTACCATTCGTGAGAACACTGAAGGAGAGTACAGTGGGCTTGAACACCAGgttagtctattgttctgtcattttagtgaatctgtatctagtatcatttttagagccatgttgatgatttgtcatttttatttgctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA