BtaINT0038419 @ bosTau6
Intron Retention
Gene
ENSBTAG00000045943 | CHRNG
Description
Bos taurus cholinergic receptor, nicotinic, gamma (muscle) (CHRNG), mRNA. [Source:RefSeq mRNA;Acc:NM_174273]
Coordinates
chr2:120988439-120988879:+
Coord C1 exon
chr2:120988439-120988534
Coord A exon
chr2:120988535-120988739
Coord C2 exon
chr2:120988740-120988879
Length
205 bp
Sequences
Splice sites
5' ss Seq
TGGGTGTGG
5' ss Score
1.27
3' ss Seq
CTCACCGCTGTTTGCTCCAGGGG
3' ss Score
8.99
Exon sequences
Seq C1 exon
AACTGCAGTCCCACCCCGTCCCTACGGAGAACTGTGGCACCATGTGCGGGGGCCAGAGGCCACTGTTCCTTCTGCCGCTGCTAGCTGTCTGCTTGG
Seq A exon
GTGTGGACACAGCGGGTCCTCCTGGGGAGGCCGGGACCAGGAGCCCAAGGACTCAGGGGATGGAGGGTCTGGGGAGGGGTGCTACCGAGGCCTGTCCCCCACCCCCCAACTCTCCACTTCTCCATGTCCCCTGCTCCCGTGGCCCGCCCCCGCCCTGATCTGCCCCAGAGGCCGTGTCCCAGGCTCTCACCGCTGTTTGCTCCAG
Seq C2 exon
GGGCCAAGGGCCGGAACCAGGAGGAGCGTCTGCTCGGGGACCTGATGCAAGGCTACAACCCCCACCTGAGACCTGCTGAGCACGATTCGGACGTGGTCAACGTCAGCCTGAAGCTCACGCTTACCAACCTCATCTCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000045943:ENSBTAT00000053164:1
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(18.1=83.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
AACTGCAGTCCCACCCCG
R:
CAGGGAGATGAGGTTGGTAAGC
Band lengths:
236-441
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]