RnoINT0036318 @ rn6
Intron Retention
Gene
ENSRNOG00000014698 | Chrnb1
Description
cholinergic receptor nicotinic beta 1 subunit [Source:RGD Symbol;Acc:2349]
Coordinates
chr10:56402834-56403188:-
Coord C1 exon
chr10:56403061-56403188
Coord A exon
chr10:56402974-56403060
Coord C2 exon
chr10:56402834-56402973
Length
87 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TTAGTGCTTTCCTTCATTAGGAG
3' ss Score
6.87
Exon sequences
Seq C1 exon
CGTCACTTCCCCTGGCCTGGCGGCCTCGGCCGCTCTTCGGACAAACCCACTGAGCGAAATCGGCAGGGCCATGGCCTTAGGGGCGCTGCTTCTGATTCTGGGGATACTCGGGACGCCCCTCGCCCCAG
Seq A exon
GTAAGTCAGTCTGGACGCCGAAGAGGCAGTGAACAGCAGTGGTCACGGCCAGCCCTCGGAGCGTCACTTAGTGCTTTCCTTCATTAG
Seq C2 exon
GAGCCCGCGGGTCGGAAGCCGAAGGCCAACTGCTTAAGAAACTTTTCTCGGATTATGATAGCTCAGTAAGGCCGGCGCAGGAGGTGGGAGACCGCGTCGGGGTCAGCATCGGCCTCACCCTGGCGCAACTCATCAGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014698:ENSRNOT00000019947:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0293118=Neur_chan_LBD=PU(17.8=83.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCGGACAAACCCACTGAGC
R:
GCCGGCCTTACTGAGCTATCA
Band lengths:
170-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]