RnoINT0036329 @ rn6
Intron Retention
Gene
ENSRNOG00000020778 | Chrnb2
Description
cholinergic receptor nicotinic beta 2 subunit [Source:RGD Symbol;Acc:2350]
Coordinates
chr2:189095192-189095554:-
Coord C1 exon
chr2:189095409-189095554
Coord A exon
chr2:189095237-189095408
Coord C2 exon
chr2:189095192-189095236
Length
172 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
GCTACCCTGTTTCCCTGCAGCAC
3' ss Score
9.69
Exon sequences
Seq C1 exon
GGGTTTTGGGAACTGACACAGAGGAGCGGCTAGTGGAGCATCTCTTAGATCCCTCCCGCTATAACAAGCTGATTCGTCCAGCTACTAACGGCTCTGAGCTGGTGACTGTACAGCTCATGGTATCATTGGCTCAGCTCATTAGTGTG
Seq A exon
GTAAGTGTGGGTCTTGAACTCTGTCCAGCTACAGAAGTCAGCCCAGCCAGAAAGGTTTAATGCCCAAGTTTTCTTAAGTGCTTCCAGGGTGGAAGAGACCTTAATAGGGTGGTGGCAGGTCTGAGGGCTTGGGTTGGAGCATCTTCTCAGCAGCTACCCTGTTTCCCTGCAG
Seq C2 exon
CACGAGCGGGAGCAGATCATGACCACCAATGTCTGGCTGACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020778:ENSRNOT00000028200:2
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=PU(19.9=83.7)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(6.8=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:
GGGTTTTGGGAACTGACACAGA
R:
ACATTGGTGGTCATGATCTGCT
Band lengths:
178-350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]