Sequence
atgc intronic sequence ATGC exonic sequence...gtctgattgttatcgatttttgggggtaaaaatttgtattttgtttaatctggtttggttctattgatgaatcgtttttctcgtttatcttcaagcttagCTGGATTCGTCTCTGGTGCTGTAGATTTTCGAGATCCGGTCAGAGTCGTTCGTGAAAAGCTCCTTGTTTAAGTGTTACGGGCTACATCGGACGCTGACTG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G21040.1 |
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|86060767|gb|DR356524.1|DR356524EST: TGGCGAAAATCCTCTCTCTGTTACGAATAGATTGTTTTTGATTACTAAAG CTGGATTCGTCTCTGGTGCTGTAGATTTTCGAGATCCGGTCAGAGTCGTTC
genomic: TGGCGAAAATCCTCTCTCTGTTACGAATAGATTGTTTTTGATTACTAAAGgtactaactt ... tcaagcttagCTGGATTCGTCTCTGGTGCTGTAGATTTTCGAGATCCGGTCAGAGTCGTTC
EST:
gi|86060768|gb|DR356525.1|DR356525EST: TGGCGAAAATCCTCTCTCTGTTACGAATAGATTGTTTTTGATTACTAAAG CTGGATTCGTCTCTGGTGCTGTAGATTTTCGAGATCCGGTCAGAGTCGTTC
genomic: TGGCGAAAATCCTCTCTCTGTTACGAATAGATTGTTTTTGATTACTAAAGgtactaactt ... tcaagcttagCTGGATTCGTCTCTGGTGCTGTAGATTTTCGAGATCCGGTCAGAGTCGTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatctggtttggttctattgatgaatcgtttttctcgtttatcttcaagcttagCTGGATTCGTCTCTGGTGCTGTAGATTTTCGAGATCCGGTCAGAGTCGTTCGTGAAAAGCTCCTTGTTTAAGTGTTACGGGCTACATCGGACGCTGACTG
tattgat putative branch site (score: 3)
tcgtttttctcgttta putative PPT
tttatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgattgttatcgatttttgggggtaaaaatttgtattttgtttaatctggtttggttctattgatgaatcgtttttctcgtttatcttcaagcttagCTGGATTCGTCTCTGGTGCTGTAGATTTTCGAGATCCGGTCAGAGTCGTTCGTGAAAAGCTCCTTGTTTAAGTGTTACGGGCTACATCGGACGCTGACTG
- - - - - - - - tttttgg
- - - - - - - - - - - - -gtaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - -ggtttgg