HsaINT0035265 @ hg19
Intron Retention
Gene
ENSG00000196811 | CHRNG
Description
cholinergic receptor, nicotinic, gamma (muscle) [Source:HGNC Symbol;Acc:1967]
Coordinates
chr2:233406084-233407230:+
Coord C1 exon
chr2:233406084-233406239
Coord A exon
chr2:233406240-233407132
Coord C2 exon
chr2:233407133-233407230
Length
893 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGG
5' ss Score
4.09
3' ss Seq
CTTTCCTCGGTGACTCCCAGGTC
3' ss Score
6.64
Exon sequences
Seq C1 exon
CGTGGACGGTGTCTTCGAGGTGGCCCTCTACTGCAATGTGCTCGTGTCCCCTGACGGCTGTATCTACTGGCTGCCGCCTGCCATCTTCCGTTCCGCCTGCTCTATCTCAGTCACCTACTTCCCCTTCGACTGGCAGAACTGCTCCCTTATCTTCCA
Seq A exon
GTGAGGCCATTTATTGGGGAGGATTAAGAGAGCTGCTCTCAGAGGGGCCTGGGCAGTGGTGGGGTAAGGCCTGGGCAAGGCTTCTGGCCTTGGCTCTGGCAGCACCTAGAGGCCTGGCTCCATCTCCCCTGGGCCTCTGTGCCCATCTCAGGCTAAGACACCTGAAGGTGCCCAAGCTCTCCCTGCTAAGCCCGAGTCCCCTCACTCATCCTTTACTGCCTCAGTTTCCTCACCTGTGCTCCAAGGGGAGACATTCACGCCTGGGGTGCGTGGGTGAGAAGGCACACATGCACACAAGATGCGTGTCTGCGCACACACGAAACCACTGCACACTCCAGGCCCACAGGGAGGCAGGGCTGTCCTGTGAGAGAGGGGCCCTGGCAGGGAATCCAGCGGAAGCATGTATGCAACCAAGCCACCCCTGGGGGTCTCTGGGTCTGTTTCCTCAAACCTAAGTGTGGGGAGGAGGGCCCGGGGGAGGGTTCTCCTGTACCTTAGAGGAGCAGTCTTTCCATGAGCAAACCTGGCAGGGAGACTCCCCTCTGTAGACACGGGGGTCCTCCTGAGGTAGGCATGTGTTTTCTACATTGCCATCATCAGCCCCTCCTGCCAGACAGCAGTGGGAGAGACAAATGCAGAGTGACCCTGGGCCCATCAGCCAGGTGAGGGCCCTGCAGCCTCCTGGGCCTTCAACTCCATCTTCCTGACCCCAAAGAGCCCTAGGTCCTCCTGCTCTCCATATCTCGCCAGTGGGGTTTTATAGAGAACTCAGAAGCGTGGGGCTGCATTTTGTTGAAGAAAAGCTGCCCACACTTGTCCCCAGAAGGTCATCCCCATGCAGTCGTGGCAGGTCCACCCGCTCACATTTAGCCTCTTTCCTCGGTGACTCCCAG
Seq C2 exon
GTCCCAGACTTACAGCACCAATGAGATTGATCTGCAGCTGAGTCAGGAAGATGGCCAGACCATCGAGTGGATTTTCATTGACCCTGAGGCCTTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196811-CHRNG:NM_005199:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.015
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(24.1=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(3.2=8.8),PF0293118=Neur_chan_LBD=PU(45.2=97.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGGACGGTGTCTTCGAG
R:
CTGTGAAGGCCTCAGGGTCAA
Band lengths:
254-1147
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)