DreINT0046797 @ danRer10
Intron Retention
Gene
ENSDARG00000019342 | chrnd
Description
cholinergic receptor, nicotinic, delta (muscle) [Source:ZFIN;Acc:ZDB-GENE-030131-6665]
Coordinates
chr24:25543522-25544189:-
Coord C1 exon
chr24:25544034-25544189
Coord A exon
chr24:25543632-25544033
Coord C2 exon
chr24:25543522-25543631
Length
402 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
GCTTAATCTTTTTTTTTCAGCTC
3' ss Score
8.34
Exon sequences
Seq C1 exon
CAATGATGCCCAGTTTCAGGTGGCTTATTACTGTAACGTGCTGATTTATTCCAGTGGAGATATGTACTGGTTGCCTCCAGCTATATTTCGGAGCTCCTGCTCTATAAATGTCAACTACTTCCCCTTTGATTGGCAAAACTGCTCACTAAAGTTCAG
Seq A exon
GTACTTTTCCACATTAAAGGGGTAGTTCACCCAAAAACGAATATTAACTCATTATTTACTCACCCTCAAGGGTTTCCAAATTATTATGATTTTTAGTTTTATTCTGTTGAACACTAAAACCTGAAAACCTGTTGACTTACATTGTAGAAAAATCAAATACTATGAAAGTCAATGGTCACAGGTTTCCAACATTTTTCAAAATATCTTCTTTTGTGTTCAACAGAAGAAAGAAACTCATAAAAAGGTGTGAGTAGATGAAGATATTTTATAAATAATTGACTATTTACTTTACTATATCTTACTATTTATTTCAGTTTTGGGTGAACTAACCCTGTTGTATGAATTACATTGTGTATTTGTTGCCTTATTTGAGCCCCATAATGCTTAATCTTTTTTTTTCAG
Seq C2 exon
CTCGTTAACTTACAACGCTAAAGAGATTAGCTTAAATCTGAAAATGGAGCAGGAAAATACAACATACTACAAGGTGGAATGGATCATCATTGATCCTGAAGGATTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019342:ENSDART00000015391:5
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(23.5=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(16.7=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:
ATGATGCCCAGTTTCAGGTGG
R:
TCAATGATGATCCATTCCACCTTGT
Band lengths:
247-649
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]