Sequence
atgc intronic sequence ATGC exonic sequencegtaagttttttttccccaaatcattaaattagggttttagttgtgtgggattagtggaaaatgattgattttgtgtagATTGCGATGCTTGAGCATAGAGAAAAAGTGATTTCTAAGGATTCTGAAATTGAAGAGACTGAAGAATTCGACACTGAATCTCCATTACCTAAAGCTGTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G55210.1 |
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|124840277|gb|EH924716.1|EH924716EST: GTTCCGGTGAGACAGAGGAGTCGCCTAAGCGAAGATTCAGATACGCTCCA AATTAGCGATGCTTGAGCATAGAGAAAA
genomic: GTTCCGGTGAGACAGAGGAGTCGCCTAAGCGAAGATTCAGATACGCTCCAgtaagttttt ... ttttgtgtagA-TT-GCGATGCTTGAGCATAGAGAAAA
EST:
gi|125060132|gb|EL128809.1|EL128809EST: CCTAAGCGAAGATTCAGATACGCTCCA ATTGCGATGCTTGAGCATAGAGAAAAAGTGATTTCTAAGGATTCTGAAATT
genomic: CCTAAGCGAAGATTCAGATACGCTCCAgtaagttttt ... ttttgtgtagATTGCGATGCTTGAGCATAGAGAAAAAGTGATTTCTAAGGATTCTGAAATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaattagggttttagttgtgtgggattagtggaaaatgattgattttgtgtagATTGCGATGCTTGAGCATAGAGAAAAAGTGATTTCTAAGGATTCTGAAATTGAAGAGACTGAAGAATTCGACACTGAATCTCCATTACCTAAAGCTGTTG
gattgat putative branch site (score: 4)
aaaatgattgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttttttttccccaaatcattaaattagggttttagttgtgtgggattagtggaaaatgattgattttgtgtagATTGCGATGCTTGAGCATAGAGAAAAAGTGATTTCTAAGGATTCTGAAATTGAAGAGACTGAAGAATTCGACACTGAATCTCCATTACCTAAAGCTGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT