Sequence
atgc intronic sequence ATGC exonic sequenceTATCTTAGCACAGCAGAATTTTCTATGCGGGAGGAATTATCACTTAAAGCTGCTATTCTTGCTGAGAAGTTTGCTCCTGATCTTTCATGgtaaagagaactcgacaagaagtatatgtacattttttcatgcacactatagagacatgtgctgtgccctttagatccttacacaagcaattggtcaaagatgttaattttgatgttctcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G22780.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G22780.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os03g02150.1 (Oryza sativa), 5'ss of exon 12
TATCTTAGCACAGCAGAATTTTCTATGCGGGAGGAATTATCACTTAAAGCTGCTATTCTTGCTGAGAAGTTTGCTCCTGATCTTTCATGgtaaagagaactcgacaagaagtatatgtacattttttcatgcacactatagagacatgtgctgtgccctttagatccttacacaagcaat-tggtcaaagatgttaattttgatgttctcag
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TATCTTAACACAGCTGAATTTGCAATGCGCGAAGAGCTGTCCCTGAAGGCAGCTATCCTTGCTGAGAAATTCGCTCCAGATCTTTCATGgtaaagtattttttgcga----tacagcca-atttttccagttactttgttgtgaaatgtgagctattttttagatgatta-gtgtgtgatgtatttataaatgaa-----------------
upper sequence: AT5G22780.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA12G30520.1 (Glycine max), 5'ss of exon 12
TATCTTAGCACAGCAGAATTTTCTATGCGGGAGGAATTATCACTTAAAGCTGCTATTCTTGCTGAGAAGTTTGCTCCTGATCTTTCATGgtaaagaga---actcgacaagaagtatatgtacatt-ttttcatgcacactatagagacatgtgctgtgccctttagatccttac---acaagcaattggtcaaagatgttaattttgatgttctcag
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TATCTCAGCACAGCGGAGTTTGCAATGCGTGAGGAATTGTCACTTAAAGCAGCTATTCTTGCTGAGAAGTTTGCACCAGATCTTTCATGgtaatgcaatagagcctactagaaaaataaaagaataatattgttatttaatactgtagcagataatctcatcactgggtactttcttgatatgtaactg-----------------------------
upper sequence: AT5G22780.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA17G05410.1 (Glycine max), 5'ss of exon 12
TATCTTAGCACAGCAGAATTTTCTATGCGGGAGGAATTATCACTTAAAGCTGCTATTCTTGCTGAGAAGTTTGCTCCTGATCTTTCATGgtaaagaga--------actcgacaagaagtatatgtacattttttcatgcacactatag-agacatgtgctgtgccctttagatccttacacaagcaattggtcaaagatgttaattttgatgttctcag
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TATCTCAGCACAGCGGAGTTTGCAATGCGTGAGGAATTGTCACTTAAAGCAGCTATTCTTGCTGAGAAGTTTGCACCAGACCTTTCATGgtaatgcaatagaccctactagaaaaataatagaataatattgtttcttatttagtgttttgaacttttgatgtgttctttcatctttttctgtagc--ttg-----------------------------Mapped 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|301501394|gb|HO206934.1|HO206934EST: AGAAGTTTGCTCCTGATCTTTCATG GTATGTAGATGTGATCCTTCAGTTGATCGACAAGGCTGGGGATTTTGTTAG
genomic: AGAAGTTTGCTCCTGATCTTTCATGgtaaagagaa ... atgttctcagGTATGTAGATGTGATCCTTCAGTTGATCGACAAGGCTGGGGATTTTGTTAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TATCTTAGCACAGCAGAATTTTCTATGCGGGAGGAATTATCACTTAAAGCTGCTATTCTTGCTGAGAAGTTTGCTCCTGATCTTTCATGgtaaagagaactcgacaagaagtatatgtacattttttcatgcacactatagagacatgtgctgtgccctttagatccttacacaagcaattggtcaaagatgttaattttgatgttctcag
- - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT