DreINT0129995 @ danRer10
Intron Retention
Gene
ENSDARG00000004697 | rxrgb
Description
retinoid X receptor, gamma b [Source:ZFIN;Acc:ZDB-GENE-040718-34]
Coordinates
chr20:34012546-34012864:+
Coord C1 exon
chr20:34012546-34012678
Coord A exon
chr20:34012679-34012772
Coord C2 exon
chr20:34012773-34012864
Length
94 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
TGCGTGTGTTTGTGTGACAGGGT
3' ss Score
9.06
Exon sequences
Seq C1 exon
GATGGAACGAGCTGCTCATTGCTTCATTCTCTCATCGCTCCATCACAGTGAAAGATGGCATCCTGCTAGGCACAGGGCTTCATGTCCACAGGAGCAGTGCTCACAGTGCAGGAGTTGGCTCCATTTTCAACAG
Seq A exon
GTCAGCTTTTACACTTTCAGACAGTCAACCGGACAAGCTGTATTTTCTATTACATGTACTGTGCATTCACTTTGTGCGTGTGTTTGTGTGACAG
Seq C2 exon
GGTACTGACCGAACTGGTGTCTAAAATGAAGGACATGCAGATGGATAAGACAGAACTAGGCTGCCTTAGGGCCATCGTCCTCTTCAACCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004697:ENSDART00000002554:7
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(22.4=100)
A:
NA
C2:
PF0010425=Hormone_recep=FE(15.8=100)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGATGGCATCCTGCTAGGC
R:
AAGAGGACGATGGCCCTAAGG
Band lengths:
167-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]