BtaINT0038421 @ bosTau6
Intron Retention
Gene
ENSBTAG00000045943 | CHRNG
Description
Bos taurus cholinergic receptor, nicotinic, gamma (muscle) (CHRNG), mRNA. [Source:RefSeq mRNA;Acc:NM_174273]
Coordinates
chr2:120993245-120993968:+
Coord C1 exon
chr2:120993245-120993378
Coord A exon
chr2:120993379-120993662
Coord C2 exon
chr2:120993663-120993968
Length
284 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
ACCCTGCCTTCCACCCTCAGGGG
3' ss Score
11.31
Exon sequences
Seq C1 exon
AGAAAGGCCCAGAGTCAGGGCAGAGCCCAGAATGGTGTGGCAGCCTGAAGCAGGCCGCCCCGGCCATCCAGGCCTGCGTGGAGGCCTGCAACCTCATTGCCCGTGCCCGGCACCAGCAGACTCACTTTGACAGT
Seq A exon
GTAAGTCAGCAGGGGGTGGGGTAGGGTTTGCACACCTGGTGTGCAAACTTGAACCTGAGATGGGGGCAGGATGAGTGGGGTGGCCATGGTATGGCAATGGCATGGAAAAAGTGGAATTGGGAATGGCGCCATGGGACCATGGAGAAAGCCAGGGTCAGACCTGAAGTAGGTGAGAAGGGCTCAAGGAAATGAAGAGCAGAAGCCTGCTGGGTGGCTAAGGATGCTCCAGAGATCCAGCCTTGGTGTCACCTCTGGTCACCTCTTACCCTGCCTTCCACCCTCAG
Seq C2 exon
GGGAACAAGGAGTGGTTCCTGGTGGGCCGAGTGCTGGATCGAGTCTGCTTCCTGGCCATGCTCTCGCTCTTTGTCTGTGGCACTGCTGGCATCTTCCTCATGGCCCACTACAACCGAGTACCTGCCCTGCCTTTTCCTGGGGACCCCCGCTCCTATCTGCCCTCATCTGACTGAGCTGACCAATTGCTGCTAGCCACGTGGAGTCTTATCAGCTGTTTTCTGCTCCTGAGGTCATGAGTATACTATTTGGGAAACACTCTTGGGGGATATGTGAGAAAAGCTGGGGAAATAAAGAGACAGAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000045943:ENSBTAT00000053164:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.067 A=NA C2=0.035
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(17.8=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(12.6=53.4)
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:
GCACCAGCAGACTCACTTTGA
R:
ATCCCCCAAGAGTGTTTCCCA
Band lengths:
293-577
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]