DreINT0046792 @ danRer10
Intron Retention
Gene
ENSDARG00000019342 | chrnd
Description
cholinergic receptor, nicotinic, delta (muscle) [Source:ZFIN;Acc:ZDB-GENE-030131-6665]
Coordinates
chr24:25540442-25540855:-
Coord C1 exon
chr24:25540645-25540855
Coord A exon
chr24:25540561-25540644
Coord C2 exon
chr24:25540442-25540560
Length
84 bp
Sequences
Splice sites
5' ss Seq
CCAGTCAGT
5' ss Score
0.29
3' ss Seq
AAAGTGTTGATTCTCCACAGCGT
3' ss Score
6.92
Exon sequences
Seq C1 exon
TTCTTTTTGGAGCGTCTTCCTCGTCTCCTGCACATGTCCCTTCCAGTCGAAGACCAACCGGTCCCAGAATCAGCACTGCCCCGGCGCTCCAGCTCATTAGGATACATCGCCCAGGCTGAGGAGTATTACAGTGTTAAATCCCGCAGCGAGCTGATGTTCGAGAAGCAGTCGGAAAGGCATGGTTTGGCCGCTCGTCCCACTCCCAAAGCCA
Seq A exon
GTCAGTCTCACATTATGATGCTCAGTGTTTGAGTGTGTTCAAGTGTTATCACACAGCGCCATTAAAAGTGTTGATTCTCCACAG
Seq C2 exon
CGTACACATCCAGTAATGACTCTGAGGTGTCGGAACAGCTGTACAATGAGATGAAGCCAGCTGTAGAAGGAGCCAATTACATTGTTAAGCACATGCACGACAAAAATGACTATAATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019342:ENSDART00000015391:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.141 A=NA C2=0.425
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(29.3=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(16.3=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:
CGCCCAGGCTGAGGAGTATTA
R:
GCTCCTTCTACAGCTGGCTTC
Band lengths:
177-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]