BtaINT0038417 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004908 | CHRNE
Description
Bos taurus cholinergic receptor, nicotinic, epsilon (muscle) (CHRNE), mRNA. [Source:RefSeq mRNA;Acc:NM_174272]
Coordinates
chr19:27120446-27120838:+
Coord C1 exon
chr19:27120446-27120646
Coord A exon
chr19:27120647-27120723
Coord C2 exon
chr19:27120724-27120838
Length
77 bp
Sequences
Splice sites
5' ss Seq
AGGGTATGG
5' ss Score
7
3' ss Seq
TCACCAGGCACTCCCTCCAGCCG
3' ss Score
4.68
Exon sequences
Seq C1 exon
AGAACGGCGAGTGGGCCATCGACTTCTGTCCCGGGGTGATCCGCCGCCACGACGGTGACTCTGCGGGTGGCCCAGGGGAAACTGACGTCATCTACTCGCTCATTATTCGCCGGAAGCCACTCTTCTACGTTATTAACATCATCGTGCCCTGCGTGCTCATCTCGGGCCTGGTGCTGCTCGCCTACTTCCTGCCCGCGCAGG
Seq A exon
GTATGGAGTCGCCCAGACCCCAAACCCGGGGCCCCTCCTGGGGGGCGGGGCCTGTCCTCACCAGGCACTCCCTCCAG
Seq C2 exon
CCGGCGGCCAGAAATGCACCGTTTCCATCAACGTCCTGCTCGCCCAGACCGTCTTCTTGTTCCTGATTGCCCAGAAAACCCCAGAGACATCTCTGAGCGTGCCGCTGTTGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004908:ENSBTAT00000045415:7
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=PD(18.0=57.4),PF0293211=Neur_chan_memb=PU(9.2=30.9)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(16.7=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:
TCGCTCATTATTCGCCGGAAG
R:
GAACAAGAAGACGGTCTGGGC
Band lengths:
168-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]