BtaINT0038413 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004908 | CHRNE
Description
Bos taurus cholinergic receptor, nicotinic, epsilon (muscle) (CHRNE), mRNA. [Source:RefSeq mRNA;Acc:NM_174272]
Coordinates
chr19:27119105-27119369:+
Coord C1 exon
chr19:27119105-27119149
Coord A exon
chr19:27119150-27119259
Coord C2 exon
chr19:27119260-27119369
Length
110 bp
Sequences
Splice sites
5' ss Seq
ATCGTGAGT
5' ss Score
8.88
3' ss Seq
GTCCCCTCCCCCGCCCCTAGGAC
3' ss Score
11.84
Exon sequences
Seq C1 exon
AACGAGAAAGAAGAGACCCTCACCACCAGCGTCTGGATTGGAATC
Seq A exon
GTGAGTCAAGGCTGGGGAACAGCGTGAGATCTGGTTTAGGGGACCCTTTTCTCCCAAAAGCCTCGCAGGCAGCGCGGCACACGTCCTTCCGTCCCCTCCCCCGCCCCTAG
Seq C2 exon
GACTGGCAAGATTACCGACTCAACTACAGCAAGGGCGACTTTGGGGGCGTAGAAACCCTGCGGGTCCCTTCAGAACTCGTATGGCTGCCAGAGATTGTGCTGGAAAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004908:ENSBTAT00000045415:3
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(6.5=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(16.6=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:
AACGAGAAAGAAGAGACCCTCAC
R:
TGTTTTCCAGCACAATCTCTGGC
Band lengths:
154-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]