DreINT0090685 @ danRer10
Intron Retention
Gene
ENSDARG00000061517 | lrp1bb
Description
low density lipoprotein receptor-related protein 1Bb [Source:ZFIN;Acc:ZDB-GENE-070912-401]
Coordinates
chr9:36852170-36852623:+
Coord C1 exon
chr9:36852170-36852295
Coord A exon
chr9:36852296-36852458
Coord C2 exon
chr9:36852459-36852623
Length
163 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGA
5' ss Score
5.06
3' ss Seq
ATTATTTCAAAATGATAAAGGTG
3' ss Score
1.91
Exon sequences
Seq C1 exon
TGGCCAACCCCTGTCTACGGATGACCTGTGAATTTATGTGCTTGCTCAATCCAACCGGGGCCAGCTGCACTTGTCCAGAGGGGAAGACCTTGGTCAATGGCTCTTGTATTGACCCCATTGTCTCAG
Seq A exon
GTCTGAAGCCTTACTTCACTGTTGGGCTGATAACTTTCCTTTGTTCTTTGCTAAGCCAGTAGTTTTTTATTAATTGTGGGGGTTCTGAAATAGTTATAGAAATAGAAATAATAAGTTATATATATATATATGGAATAATACATATTATTTCAAAATGATAAAG
Seq C2 exon
GTGAGCTGTGCCGACCTGCCTGTGAGAATGGAGGACGCTGCATGGCCAACGAAAAAGGAGACTGGCGCTGTTACTGCTGGCCCAATTTCTCTGGGGAACGCTGTGAAGTCAACCATTGTGCAGATTACTGCTTAAACGGAGGCACGTGCACTGGCTCACCTCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000061517:ENSDART00000139033:79
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAACCCCTGTCTACGGATGA
R:
ACAATGGTTGACTTCACAGCGT
Band lengths:
242-405
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]