HsaINT0035262 @ hg19
Intron Retention
Gene
ENSG00000196811 | CHRNG
Description
cholinergic receptor, nicotinic, gamma (muscle) [Source:HGNC Symbol;Acc:1967]
Coordinates
chr2:233404702-233405135:+
Coord C1 exon
chr2:233404702-233404841
Coord A exon
chr2:233404842-233405090
Coord C2 exon
chr2:233405091-233405135
Length
249 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
CTACACCCTTGCACCCCCAGAAC
3' ss Score
7.68
Exon sequences
Seq C1 exon
GGGCCCAGGGCCGGAACCAGGAGGAGCGCCTGCTCGCAGACCTGATGCAAAACTACGACCCCAACCTGCGGCCCGCGGAACGAGACTCGGATGTGGTCAATGTCAGCCTGAAGCTAACCCTCACCAACCTCATCTCCCTG
Seq A exon
GTAAGCCGCAGGACGGAGGAGGGGTCAGCGCACCACGCCCTGGGACCTGCTGGGGATAGCATGGGGTGGCTCCAGCCACCAAGAGGTTGGAGGGCCCTAAATCGGACAGGCTGGGGTCTGGAAAACCCCCATGGTTGTGGGGGGAGTACTATCAAGAGGCTGGGGGATGCTTGGCCCCATTGGTGGCCTGTGGGGACTGGCACTGAAGTCGGGGGCTGAGCCCTCCATACTACACCCTTGCACCCCCAG
Seq C2 exon
AACGAGCGAGAGGAAGCCCTCACCACCAATGTCTGGATAGAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196811-CHRNG:NM_005199:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PU(18.1=83.0)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(14.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCGGAACCAGGAGGAG
R:
GACATTGGTGGTGAGGGCTTC
Band lengths:
165-414
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)