BtaINT0038409 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004908 | CHRNE
Description
Bos taurus cholinergic receptor, nicotinic, epsilon (muscle) (CHRNE), mRNA. [Source:RefSeq mRNA;Acc:NM_174272]
Coordinates
chr19:27118517-27118986:+
Coord C1 exon
chr19:27118517-27118584
Coord A exon
chr19:27118585-27118843
Coord C2 exon
chr19:27118844-27118986
Length
259 bp
Sequences
Splice sites
5' ss Seq
TCGGTATGG
5' ss Score
7.88
3' ss Seq
CTGCTTGGCCCCATCCCCAGGCA
3' ss Score
7.16
Exon sequences
Seq C1 exon
ACCTGGGGGACCAGACAGCGGAATGGCAGGGGCTCTGCTCTGCGCCCTGCTCCTCTTGCAGCTCCTCG
Seq A exon
GTATGGGCCAGGGTCGGGGGAAGAGGTGGGACGCACACACACAGGACACTGACATAAAGGGACAGGACAGAGACCGACTGAGATGTAGACAGACATATTTGGTCCCCAGGCACAGTATCACTAGTTCGGGAGACAGACATGGGAAAATACACAGCCTCAGAGACATACAGAGAAGCAGAGACCTGTAGACCCGGAGGCAGAGCAGAGCGGCTCCCCAGACTCTCCCGGTCCTGACCCTGCTGCTTGGCCCCATCCCCAG
Seq C2 exon
GCAGAGGTGAGGGGAAGAATGAGGAGCTGCGCCTTTACCACTACCTCTTCGACACCTATGACCCAGGACGCCGGCCAGTGCAGGAGCCCGAGGACACTGTCACCATCTCCCTCAAAGTCACCCTGACCAACCTCATCTCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004908:ENSBTAT00000045415:1
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=0.021
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0293118=Neur_chan_LBD=PU(18.0=81.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGACCAGACAGCGGAATG
R:
AGGGAGATGAGGTTGGTCAGG
Band lengths:
204-463
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]