DreINT0090633 @ danRer10
Intron Retention
Gene
ENSDARG00000061517 | lrp1bb
Description
low density lipoprotein receptor-related protein 1Bb [Source:ZFIN;Acc:ZDB-GENE-070912-401]
Coordinates
chr9:36717414-36717795:+
Coord C1 exon
chr9:36717414-36717539
Coord A exon
chr9:36717540-36717663
Coord C2 exon
chr9:36717664-36717795
Length
124 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAC
5' ss Score
7.07
3' ss Seq
TCTCTGTCTTGCTGTCCCAGGCC
3' ss Score
9.76
Exon sequences
Seq C1 exon
GTAGAAATGCCTGTCAGTTAAACAACGGCGGCTGCTCTCAGCTCTGTCTGCCCACATCAGAAAATACTCGAACCTGCGCCTGCACCATCGGATACAACTTGCGCAACGACCGGCTCTCCTGTGAAG
Seq A exon
GTAGACTGTCCTCTCCGTGTCACTGTATCTTGTTTTTCTATGTAACTACTAGTTCTGTTATGTCAAATAATCCAGAGTCATGTTAAATTGACGTCCGTCTGACATCTCTGTCTTGCTGTCCCAG
Seq C2 exon
GCCTGAACTCTTTCCTGATGTACTCTTTTCACGAGGGGATTCGTGGCATCGCTTTGGACCCCAATGACCATACCGAGACCCTGATGCCCATCAGCGGCACCTTGTTTGCAGTTGGTGTGGACTTTCATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000061517:ENSDART00000139033:31
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:
PF146701=FXa_inhibition=WD(100=88.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTGTCAGTTAAACAACGGC
R:
TGAAAGTCCACACCAACTGCA
Band lengths:
245-369
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]