DreINT0046799 @ danRer10
Intron Retention
Gene
ENSDARG00000019342 | chrnd
Description
cholinergic receptor, nicotinic, delta (muscle) [Source:ZFIN;Acc:ZDB-GENE-030131-6665]
Coordinates
chr24:25542994-25543451:-
Coord C1 exon
chr24:25543251-25543451
Coord A exon
chr24:25543106-25543250
Coord C2 exon
chr24:25542994-25543105
Length
145 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
CTTTTTTTGACCTGATTCAGGTG
3' ss Score
8.24
Exon sequences
Seq C1 exon
AAAATGGTGAGTGGGAAATTGTCCACAAGCCTGCCAGGAGGAACATTTATAAAAGCATCCCGAAAGAAAGCAACAAGCACCAGGATATCACCTTTTACCTGATCATTAAGCGTAAACCGCTGTTCTACATTGTCAACATAATCATTCCCTGTGTGCTCATCTCTTTCTTGGCCTCGCTCGTCTATTACCTGCCTGCTGACA
Seq A exon
GTAAGTGGTCCTCCATTTATTGCATTTGTAAGTCTTTAGATTACACAGAAACATCATTAAAGATAAAAGCAAAAGTAGCAGTACTTTTTGTGTTAAAATGAATGTGTCACAAAATGATGCTGTAACTTTTTTTGACCTGATTCAG
Seq C2 exon
GTGGAGAGAAGATGACGCTGTCAATCTCTGTGCTTCTGGCTCAGTCTGTGTTCCTGCTGCTGATTTCACAGCGTCTGCCTGAGACGTCTATGGCTGTTCCTTTAATTGTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019342:ENSDART00000015391:7
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(17.6=57.4),PF0293211=Neur_chan_memb=PU(8.8=30.9)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(15.5=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:
AAATTGTCCACAAGCCTGCCA
R:
CAGCAGGAACACAGACTGAGC
Band lengths:
245-390
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]