BtaINT0038427 @ bosTau6
Intron Retention
Gene
ENSBTAG00000045943 | CHRNG
Description
Bos taurus cholinergic receptor, nicotinic, gamma (muscle) (CHRNG), mRNA. [Source:RefSeq mRNA;Acc:NM_174273]
Coordinates
chr2:120991357-120991843:+
Coord C1 exon
chr2:120991357-120991557
Coord A exon
chr2:120991558-120991728
Coord C2 exon
chr2:120991729-120991843
Length
171 bp
Sequences
Splice sites
5' ss Seq
AGGGTACCT
5' ss Score
4.24
3' ss Seq
GGCCTCTTGGTCATGGGCAGCGG
3' ss Score
3.62
Exon sequences
Seq C1 exon
AAAATGGGGAGTGGGCCATCCGGCACCGGCCAGCCAAGATGCTGCTGGACGAGGCGGCCCCAGCCGAGGAGGCAGGCCACCAGAAGGTCGTCTTCTACCTGCTCATCCAGCGCAAGCCCCTCTTCTATGTCATCAACATCATCGCGCCCTGTGTCCTCATCTCCTCCGTAGCCATCCTCATCTACTTCCTTCCTGCCAAGG
Seq A exon
GTACCTAGTGTTGGTGGGAGGGGGGCGATGGCCCGGCCAGCGGCACAGGGAGCAGGGAGGACAGAATGGCACTATGACTTGGCACCAGGGTCATGGACTCCTTGTGGGGAGGGGACTGCCCCATGGTGGGGAGGTTGAGATCCGCTCTGAGGGCCTCTTGGTCATGGGCAG
Seq C2 exon
CGGGGGGCCAGAAGTGTACCGTCGCCATCAACGTGCTCCTGGCCCAGACCGTCTTCCTCTTCCTCGTGGCCAAGAAGGTGCCCGAGACCTCCCAGGCGGTGCCACTCATCAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000045943:ENSBTAT00000053164:7
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=PD(18.1=57.4),PF0293211=Neur_chan_memb=PU(8.5=30.9)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(15.4=100)
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:
CAAGATGCTGCTGGACGAGG
R:
CTTCTTGGCCACGAGGAAGAG
Band lengths:
244-415
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]