BtaINT0038377 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019242 | CHRNB1
Description
Bos taurus cholinergic receptor, nicotinic, beta 1 (muscle) (CHRNB1), mRNA. [Source:RefSeq mRNA;Acc:NM_174516]
Coordinates
chr19:27758814-27759421:+
Coord C1 exon
chr19:27758814-27758922
Coord A exon
chr19:27758923-27759273
Coord C2 exon
chr19:27759274-27759421
Length
351 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTCC
5' ss Score
0.85
3' ss Seq
TGACTCTCCATTCCATCCAGGTC
3' ss Score
9.51
Exon sequences
Seq C1 exon
TAACGATGGAAATTTTGATGTTGCTCTGGACATCAACGTCGTGGTGTCCTCCGACGGCTCCATGCGCTGGCAGCCCCCGGGCATCTATCGCAGCAGCTGCAGCATCCAG
Seq A exon
GTCTCCGGGCTCCACCTGGGAAGCTCAAGGCGCTTGTAGAAACCCTCCCTCAGACCTACTCCTCCATTATCCCCATGACCTTCACATCCCTCTTACGCTCTGTTGAGTTTCCTCTTCTCTGTCCACTTTCATTGACTTCCAGTCTTCCTTAGTGACCTTTCTTCCAATGTCCATGGCCTCCCCAAACAACCTTCTGATTTCTCTATGACTCCACTTCTAGGTGATCTCCCTTGGTGGTCTCTAGCTCCTGAGGGGCTGTATCCTCTGACCCCTGTCTGCCCTGTGACCTCCCCAACTCCCCCAGCCCCAACCAGCTCTCTGGCAGCTCTAGTGACTCTCCATTCCATCCAG
Seq C2 exon
GTCACCTACTTCCCCTTTGACTGGCAGAACTGCACCATGGTGTTCAGTTCCTATAGCTATGACAGCTCAGAGGTCAGCCTGCAAACTGGCTTGAGTCCTGAGGGGCAGGAGCGGCAGGAAGTGTATATTCATGAAGGGACCTTTATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019242:ENSBTAT00000025624:5
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=0.060
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(16.4=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(22.4=100)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAACGATGGAAATTTTGATGTTGCT
R:
TAAAGGTCCCTTCATGAATATACACT
Band lengths:
254-605
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development