BtaINT0038372 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019242 | CHRNB1
Description
Bos taurus cholinergic receptor, nicotinic, beta 1 (muscle) (CHRNB1), mRNA. [Source:RefSeq mRNA;Acc:NM_174516]
Coordinates
chr19:27757183-27757502:+
Coord C1 exon
chr19:27757183-27757277
Coord A exon
chr19:27757278-27757362
Coord C2 exon
chr19:27757363-27757502
Length
85 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGT
5' ss Score
10.75
3' ss Seq
TCAGTTCTTTCCTCCTCCAGGCG
3' ss Score
10.27
Exon sequences
Seq C1 exon
ACCCAGCGGACTCACTGAGCGACGCGGGCGGGCTATGACCCCAGGGGCGCTGCTTCTGCTCCTGCTGGGGGTGCTGGGGGCGCATCTCGCCCCGG
Seq A exon
GTAAGTGTGGGCCTCAAAGGGGCAGTGACAGGGCCAGAGGTCGTGGCCGGGCACCAAGGCTTCACTCAGTTCTTTCCTCCTCCAG
Seq C2 exon
GCGCCCGCGGCTCGGAGGCGGAGGGCCGACTCCGCGAGAAACTTTTCTCAGGCTATGATAGCACGGTGCGGCCGGCGCGGGAGGTGGGAGACCGTGTCTGGGTCAGCATTGGTCTCACCCTGGCGCAACTCATCAGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019242:ENSBTAT00000025624:1
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(17.8=83.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTTCTGCTCCTGCTGG
R:
CAGGGTGAGACCAATGCTGAC
Band lengths:
168-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development