HsaINT0035264 @ hg19
Intron Retention
Gene
ENSG00000196811 | CHRNG
Description
cholinergic receptor, nicotinic, gamma (muscle) [Source:HGNC Symbol;Acc:1967]
Coordinates
chr2:233405312-233406239:+
Coord C1 exon
chr2:233405312-233405421
Coord A exon
chr2:233405422-233406083
Coord C2 exon
chr2:233406084-233406239
Length
662 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGG
5' ss Score
5.85
3' ss Seq
GGCCTGTTCTGTGCATACAGCGT
3' ss Score
6.17
Exon sequences
Seq C1 exon
CAGTGGTGCGACTATCGCCTGCGCTGGGATCCGCGAGACTACGAAGGCCTGTGGGTGCTGAGGGTGCCGTCCACCATGGTGTGGCGGCCGGATATCGTGCTGGAGAACAA
Seq A exon
GTGAGGAGGGGGTGCAGGCAGGGGTGTGGGGGACAAAGGACACAGGGTCTGGGCCCAGCAGAACAAGGCACTCTGGGAAAAGAGAAAGATGAGCAGAGGGTGCAAATCGGGCACCTGTGGGGCTAGGGAAGAACTGGATGGAGCAGGTGCCGAGGGCAGGGCCCTGGGTATGCCCTCTGACCCCAGGGCCAGCAGAGCAGACCCTACGCCAGGCTCCATCTCCTCTGGGCTGGGCCACCTGGGTGGGCTGCTCCCTTCCCTGTAACATGGGGCCGCTGACGGGTCCTATAGAAGCTGGCGAGAGTCAACAAGACAGGCATGAAAAGTGCATCACTCGGGGGCTGGCACATGGTGTGGGCTTAACACATTAGTCGCTATTATGACTATTATTATTATTATTATTATTATGATTAAAACAAGAGAGAGTAAGATAAGCAGAAATTAGGAGGTGGTGCCTGAGGAAGTCTGTCTGGGGCGGGGGGTGGCAGGAGGATTGCTGGGGGGACCTAGTGGTCCGGGTGGGAACCAGTCAGGGGGTGACAGGCTGGTAGGGACTGGTGTCCCCAGGCCCCTATCCACATGGGGCACAGGGGCTGGTCTGGGGCTGGGGTGTCGGGGGCTGAGCCCACAGCCTCGTGGCCTGGCCTGTTCTGTGCATACAG
Seq C2 exon
CGTGGACGGTGTCTTCGAGGTGGCCCTCTACTGCAATGTGCTCGTGTCCCCTGACGGCTGTATCTACTGGCTGCCGCCTGCCATCTTCCGTTCCGCCTGCTCTATCTCAGTCACCTACTTCCCCTTCGACTGGCAGAACTGCTCCCTTATCTTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196811-CHRNG:NM_005199:4
Average complexity
IR-S
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(37.9=100),PF0293118=Neur_chan_LBD=PU(0.1=0.0)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(24.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGACTATCGCCTGCGCTG
R:
GGAAGATAAGGGAGCAGTTCTGC
Band lengths:
257-919
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)