DreINT0129982 @ danRer10
Intron Retention
Gene
ENSDARG00000002006 | rxrbb
Description
retinoid x receptor, beta b [Source:ZFIN;Acc:ZDB-GENE-990415-242]
Coordinates
chr16:18747034-18747286:+
Coord C1 exon
chr16:18747034-18747075
Coord A exon
chr16:18747076-18747194
Coord C2 exon
chr16:18747195-18747286
Length
119 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
AGTTTATATCATATGCGCAGGGT
3' ss Score
4.04
Exon sequences
Seq C1 exon
GGAGAGTTCACACAGTGCAGAGGTGGGAGCCTTATTCGACAG
Seq A exon
GTAATGCATACGATCACATCTTTGTTTTTGCTTTTGGAATTGTGACTATTCCAGTAGTTCTGATGCTAGGGTGATTTAGCCCTCATGGAGTCCTCAATAAGTTTATATCATATGCGCAG
Seq C2 exon
GGTTCTTACTGAGCTGGTCTGCAAGATGCGTGACATGCAAATGGACAAAACTGAACTTGGCTGTCTGCGTGCCATAGTTCTGTTTAACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002006:ENSDART00000021596:8
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:
PF0010425=Hormone_recep=FE(6.8=100)
A:
NA
C2:
PF0010425=Hormone_recep=FE(15.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAGTTCACACAGTGCAGA
R:
GGTTAAACAGAACTATGGCACGC
Band lengths:
131-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]