BtaINT0038411 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004908 | CHRNE
Description
Bos taurus cholinergic receptor, nicotinic, epsilon (muscle) (CHRNE), mRNA. [Source:RefSeq mRNA;Acc:NM_174272]
Coordinates
chr19:27122618-27123114:+
Coord C1 exon
chr19:27122618-27122724
Coord A exon
chr19:27122725-27122841
Coord C2 exon
chr19:27122842-27123114
Length
117 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGG
5' ss Score
4.41
3' ss Seq
TGTGCCCACCCCTTCCCCAGGAG
3' ss Score
9.78
Exon sequences
Seq C1 exon
CTACCCTCTGCCAGAACCTGGGCGCTGCCGCCCCCGAGATCCGCTGCTGTGTGGATGCCGTGAACTTCGTGGCTTCAAGCACTCGGGACCAGGAGGCCACTGGCGAG
Seq A exon
GTGGGGCGGGAGCACCAAGGTGGGGTGAGGCGCTGGGGGCCCTCCGCCATCCCTGACTCTTGCGCATCTGGCTCCTACAGCTTTTAGGGACTCAATTTGTGCCCACCCCTTCCCCAG
Seq C2 exon
GAGGTGTCCGACTGGGTGCGCATGGGGAAGGCCCTTGACAGCATCTGCTTCTGGGCTGCTCTGGTGCTCTTCCTCGTGGGCTCCAGCCTCATCTTCCTCGGGGCCTACTTCAACCGAGTGCCTCAGCTGCCCTACCCGCCATGTATGTAGACCTGAGGCCACAGCCACACCGACAAGAATTCCCACCCGTCTCCAGGAGGATATTTGAAAAACACCTTGCTACCACTGCTTTATTACTATCCTTTCCCACTGCCAATGATAAATCTGTATTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004908:ENSBTAT00000045415:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(15.4=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(13.6=62.0)
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:
TGTGTGGATGCCGTGAACTTC
R:
TGGAGACGGGTGGGAATTCTT
Band lengths:
255-372
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]