RnoINT0036340 @ rn6
Intron Retention
Gene
ENSRNOG00000014427 | Chrnb4
Description
cholinergic receptor nicotinic beta 4 subunit [Source:RGD Symbol;Acc:2351]
Coordinates
chr8:59616939-59617195:-
Coord C1 exon
chr8:59617151-59617195
Coord A exon
chr8:59617049-59617150
Coord C2 exon
chr8:59616939-59617048
Length
102 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
GGCCCTGCCTGTGTACTTAGGAA
3' ss Score
7.9
Exon sequences
Seq C1 exon
AATGAGCGAGAACAGATCATGACCACCAGCATCTGGCTGAAACAG
Seq A exon
GTAAGTACATTGGAGGGTCCCCAGCCCAGGTATGTTTCCTCTGGGTTTGCTCTTTGGTAACAGTGGACCTACAGGTGACAATGGCCCTGCCTGTGTACTTAG
Seq C2 exon
GAATGGACTGACTACCGCCTGGCCTGGAACAGCTCCTGCTATGAAGGGGTGAACATTCTGAGGATCCCCGCAAAGCGTGTCTGGTTGCCTGACATCGTGTTGTACAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014427:ENSRNOT00000019458:3
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:
PF0293118=Neur_chan_LBD=FE(6.8=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(17.5=100)
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:
AATGAGCGAGAACAGATCATGACC
R:
TGTTGTACAACACGATGTCAGGC
Band lengths:
154-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]