Sequence
atgc intronic sequence ATGC exonic sequencegtaacaccaatctctaatgcaatttttgttcatgtcagttcaaactctttcaagttgatttttgtctagctttttctattgaggatcaaacttgtaaacacgcgattgaaaccaactgtagaatgacagatcttgtttgttattctgtctttatgttactttgtgtcatcttctaaatacttttacatataccttgcagGATACTGGTGGGTTTGTAGATGAAGAAAGCGATGGATCTCAAGCTTCTGCACAGTCATCAAGCTCCCAGGCAGTTAGCCATTCAGATGAAGCAATGTCTC
Basic information
species | Arabidopsis thaliana |
transcript | AT5G52547.2 |
intron # | 2 |
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|19874968|gb|AU235799.1|AU235799EST: TGAGCTTGGAACAATACTTTTCTCACTCTAGTTGTTTCTGCAATCAAATG GATACTGGTGGGTTTGTAGATGAAGAAAGCGATGGATCTCAAGCTTCTGCA
genomic: TGAGCTTGGAACAATACTTTTCTCACTCTAGTTGTTTCTGCAATCAAATGgtaacaccaa ... taccttgcagGATACTGGTGGGTTTGTAGATGAAGAAAGCGATGGATCTCAAGCTTCTGCA
EST:
gi|164229329|gb|ES196324.1|ES196324EST: TTGTTTCTGCAATCAAATG GATACTGGTGGGTTTGTAGATGAAGAAAGCGATGGATCTCAAGCTTC
genomic: TTGTTTCTGCAATCAAATGgtaacaccaa ... taccttgcagGATACTGGTGGGTTTGTAGATGAAGAAAGCGATGGATCTCAAGCTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgtctttatgttactttgtgtcatcttctaaatacttttacatataccttgcagGATACTGGTGGGTTTGTAGATGAAGAAAGCGATGGATCTCAAGCTTCTGCACAGTCATCAAGCTCCCAGGCAGTTAGCCATTCAGATGAAGCAATGTCTC
ttctaaa putative branch site (score: 2)
ttctaaatacttttac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacaccaatctctaatgcaatttttgttcatgtcagttcaaactctttcaagttgatttttgtctagctttttctattgaggatcaaacttgtaaacacgcgattgaaaccaactgtagaatgacagatcttgtttgttattctgtctttatgttactttgtgtcatcttctaaatacttttacatataccttgcagGATACTGGTGGGTTTGTAGATGAAGAAAGCGATGGATCTCAAGCTTCTGCACAGTCATCAAGCTCCCAGGCAGTTAGCCATTCAGATGAAGCAATGTCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA