BtaINT0038424 @ bosTau6
Intron Retention
Gene
ENSBTAG00000045943 | CHRNG
Description
Bos taurus cholinergic receptor, nicotinic, gamma (muscle) (CHRNG), mRNA. [Source:RefSeq mRNA;Acc:NM_174273]
Coordinates
chr2:120989363-120990160:+
Coord C1 exon
chr2:120989363-120989472
Coord A exon
chr2:120989473-120990004
Coord C2 exon
chr2:120990005-120990160
Length
532 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGG
5' ss Score
5.85
3' ss Seq
ACACCCTGGCCTGTCCGCAGCGT
3' ss Score
8.67
Exon sequences
Seq C1 exon
CAGTGGTGTGACTACCGGCTTCGCTGGGACCCTCGAGACTACGGCGGCCTGTGGGTGCTTCGGGTGCCATCCACCATGGTGTGGCGGCCAGACATCGTGCTGGAGAACAA
Seq A exon
GTGAGGAGGGGGCCCGGGCAGGGCAGGGCCCACAGGACAAGGGGGCCTCCGGGAAAGAGACAGGTGAACAGAGGGTGCAGCTGGGGCCCCTGAGGGCGCCAGGGCATGGGGACTGAGGGTGGGGCCCGGGAACCAGCAGCACTGATCCAACCCCGGCTCCACCACCTCAGGGCTGGGGCGCCTGGGTGGCTGCTCTCCCCACTACCGTGGGTACAAGGACAGCTCCCTCGGGAGGCACAGGACAAGCGGGGAGCTTAACCACTGTTGGTCGTGGTCATGACCCGTATGGAGGAGAGCTGGGGTGGGTGTTGTAGGGTGGGTGTTGTGGGAGGTTGTTGGAGGAGGCAGTGGTCCCCGAGGCTGGGGTAGCGGGGGACCAGGCAGGGGCATGGTGGCTGGGAAGGGCTGGTGTCCCGGGGCCCCATCCACTCGGGGCAGAGGACTGGTCAGGGTTGTGGGGGGGGGGGTGTCTCAGTCTAGCAGGGACTGTCGGGGCGCGGGCCCCCAGCCCCACACCCTGGCCTGTCCGCAG
Seq C2 exon
CGTGGACGGCGTGTTCGAGGTGGCCCTCTACTGCAACGTGCTCGTGTCTCCCGATGGCTGTGTGTACTGGCTGCCGCCGGCCATCTTCCGCTCCTCCTGCCCCGTCTCTGTCACCTTCTTCCCCTTCGACTGGCAGAACTGCTCCCTCATCTTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000045943:ENSBTAT00000053164:4
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=FE(16.7=100)
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
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGGTGTGACTACCGGCTTC
R:
AAGATGAGGGAGCAGTTCTGC
Band lengths:
262-794
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]