Sequence
atgc intronic sequence ATGC exonic sequence...ccttcagattttgattgagcatcgttttatgataatggtgaactctattggtttccaagttcttaatttgaagaagctgagaaattttcctctttggcagGGTAATTCTCTGTAGGATAGAGAGACATGGAAGCCAAGTTTTTCCGGTTCTTGAAGATTGTTGGAGTTGGATACAAAGCTAGAGCTGAGGAAGCAGGGCG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G18400.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
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|86074309|gb|DR370066.1|DR370066EST: CGCCGGCGAAAAAGCAGAGCCGTCACATTCATCGTCGGAAATCAAGAAAG GGTAATTCTCTGTAGGATAGAGAGACATGGAAGCCAAGTTTTTCCGGTTCT
genomic: CGCCGGCGAAAAAGCAGAGCCGTCACATTCATCGTCGGAAATCAAGAAAGgtattaactg ... tctttggcagGGTAATTCTCTGTAGGATAGAGAGACATGGAAGCCAAGTTTTTCCGGTTCT
EST:
gi|152033641|gb|BP560700.2|BP560700EST: CGCCGGCGAAAAAGCAGAGCCGTCACATTCATCGTCGGAAATCAAGAAAG GGTAATTCTCTGTAGGATAGAGAGACATGGAAGCCAAGTTTTTCCGGTTCT
genomic: CGCCGGCGAAAAAGCAGAGCCGTCACATTCATCGTCGGAAATCAAGAAAGgtattaactg ... tctttggcagGGTAATTCTCTGTAGGATAGAGAGACATGGAAGCCAAGTTTTTCCGGTTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattggtttccaagttcttaatttgaagaagctgagaaattttcctctttggcagGGTAATTCTCTGTAGGATAGAGAGACATGGAAGCCAAGTTTTTCCGGTTCTTGAAGATTGTTGGAGTTGGATACAAAGCTAGAGCTGAGGAAGCAGGGCG
tcttaat putative branch site (score: 3)
ttttcctctttggc putative PPT
ttcttaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccttcagattttgattgagcatcgttttatgataatggtgaactctattggtttccaagttcttaatttgaagaagctgagaaattttcctctttggcagGGTAATTCTCTGTAGGATAGAGAGACATGGAAGCCAAGTTTTTCCGGTTCTTGAAGATTGTTGGAGTTGGATACAAAGCTAGAGCTGAGGAAGCAGGGCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - gattttg
- - - - - - - - - - - - - - - - - - - - aactcta
- - - - - - - - - - - - - - - - - - - - - - - - - - - ccaagtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaagaag