BtaINT0038376 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019242 | CHRNB1
Description
Bos taurus cholinergic receptor, nicotinic, beta 1 (muscle) (CHRNB1), mRNA. [Source:RefSeq mRNA;Acc:NM_174516]
Coordinates
chr19:27758601-27758922:+
Coord C1 exon
chr19:27758601-27758710
Coord A exon
chr19:27758711-27758813
Coord C2 exon
chr19:27758814-27758922
Length
103 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGA
5' ss Score
4.46
3' ss Seq
ATTTGATTCTTTTCCTACAGTAA
3' ss Score
7.5
Exon sequences
Seq C1 exon
GAATGGACTGACTACAGGCTCAGCTGGGACCCTGAGGAGCACGAGGGCATCGATTCACTCCGCATCTCAGCGGAATCCGTGTGGCTACCCGACGTGGTGCTCCTAAACAA
Seq A exon
GTAGGATGTTCCCAAAGTTTGGGAGACGGGGCAGGGCCTCCGGAGGGGAGCGGCCTCCGGAGGACTGGGCCTGATCCGAGTTGATTTGATTCTTTTCCTACAG
Seq C2 exon
TAACGATGGAAATTTTGATGTTGCTCTGGACATCAACGTCGTGGTGTCCTCCGACGGCTCCATGCGCTGGCAGCCCCCGGGCATCTATCGCAGCAGCTGCAGCATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019242:ENSBTAT00000025624:4
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(16.4=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(16.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTACAGGCTCAGCTGGGA
R:
CTGGATGCTGCAGCTGCTG
Band lengths:
210-313
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development