Sequence
atgc intronic sequence ATGC exonic sequence...aattttgtttttgagttagcgctctggttttctctgaatctttagtgtcaaaatgtttccttggtttggaggaaaagtcttacattggaaatttttacagGTGTTTTGTTTGGATCATCGAAGCTATATGAAACATAGTTGTCCAAAAGGCGATAGAGAAGATGTGACTGTAGTTATCTGCCCACTCTGTGCTAAAGGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G41835.1 |
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|116468082|gb|EG510674.1|EG510674EST: TTTGCACGCAAATCGATTTCTTGCCTTTCACCTGCGACCGTTGCCTACAG GTGTTTTGTTTGGATCATCGAAGCTATATGAAACATAGTTGTCCAAAAGGC
genomic: TTTGCAAGCAAATCGATTTCTTGCCTTTCACCTGCGACCGTTGCCTACAGgttcctttct ... atttttacagGTGTTTTGTTTGGATCATCGAAGCTATATGAAACATAGTTGTCCAAAAGGC
EST:
gi|116468090|gb|EG510682.1|EG510682EST: TTTGCACGCAAATCGATTTCTTGCCTTTCACCTGCGACCGTTGCCTACAG GTGTTTTGTTTGGATCATCGAAGCTATATGAAACATAGTTGTCCAAAAGGC
genomic: TTTGCAAGCAAATCGATTTCTTGCCTTTCACCTGCGACCGTTGCCTACAGgttcctttct ... atttttacagGTGTTTTGTTTGGATCATCGAAGCTATATGAAACATAGTTGTCCAAAAGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtcaaaatgtttccttggtttggaggaaaagtcttacattggaaatttttacagGTGTTTTGTTTGGATCATCGAAGCTATATGAAACATAGTTGTCCAAAAGGCGATAGAGAAGATGTGACTGTAGTTATCTGCCCACTCTGTGCTAAAGGAG
gtcttac putative branch site (score: 3)
tttttac putative PPT
attggaaattttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattttgtttttgagttagcgctctggttttctctgaatctttagtgtcaaaatgtttccttggtttggaggaaaagtcttacattggaaatttttacagGTGTTTTGTTTGGATCATCGAAGCTATATGAAACATAGTTGTCCAAAAGGCGATAGAGAAGATGTGACTGTAGTTATCTGCCCACTCTGTGCTAAAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - gtttttg
- - - - - - - - - - - - - - - - -ctgaatc
- - - - - - - - - - - - - - - - - - - - - - - gtcaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaggaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttacat