DreINT0046798 @ danRer10
Intron Retention
Gene
ENSDARG00000019342 | chrnd
Description
cholinergic receptor, nicotinic, delta (muscle) [Source:ZFIN;Acc:ZDB-GENE-030131-6665]
Coordinates
chr24:25543251-25543631:-
Coord C1 exon
chr24:25543522-25543631
Coord A exon
chr24:25543452-25543521
Coord C2 exon
chr24:25543251-25543451
Length
70 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
AGATTTATTTATTTCTGCAGAAA
3' ss Score
7.54
Exon sequences
Seq C1 exon
CTCGTTAACTTACAACGCTAAAGAGATTAGCTTAAATCTGAAAATGGAGCAGGAAAATACAACATACTACAAGGTGGAATGGATCATCATTGATCCTGAAGGATTCACAG
Seq A exon
GTGAGCTCTGACATGAGGGTTTTCTATTTCTTTCATATCATCCTACTATAAGATTTATTTATTTCTGCAG
Seq C2 exon
AAAATGGTGAGTGGGAAATTGTCCACAAGCCTGCCAGGAGGAACATTTATAAAAGCATCCCGAAAGAAAGCAACAAGCACCAGGATATCACCTTTTACCTGATCATTAAGCGTAAACCGCTGTTCTACATTGTCAACATAATCATTCCCTGTGTGCTCATCTCTTTCTTGGCCTCGCTCGTCTATTACCTGCCTGCTGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019342:ENSDART00000015391:6
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(16.7=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(17.6=57.4),PF0293211=Neur_chan_memb=PU(8.8=30.9)
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:
AGCTTAAATCTGAAAATGGAGCAGGA
R:
TCCTGGTGCTTGTTGCTTTCT
Band lengths:
167-237
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]