DreINT0046807 @ danRer10
Intron Retention
Gene
ENSDARG00000034307 | chrne
Description
cholinergic receptor, nicotinic, epsilon [Source:ZFIN;Acc:ZDB-GENE-040808-32]
Coordinates
chr5:37845907-37846245:-
Coord C1 exon
chr5:37846136-37846245
Coord A exon
chr5:37846063-37846135
Coord C2 exon
chr5:37845907-37846062
Length
73 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
ACAAAATAACCTCTTTTCAGCAT
3' ss Score
5.06
Exon sequences
Seq C1 exon
CAGTGGCATGATTATCGTCTTGCGTGGAACACATCTGAGTATCATGACATTGAGCAAATTCGTGTGCCATACTACACAGTGTGGCTACCAGACATAGTATTGGAAAACAA
Seq A exon
GTGAGTTGGCAGTAAAACATTAAATTTGCTGTTATTTTCTCTCTGTTTTACTTACAAAATAACCTCTTTTCAG
Seq C2 exon
CATTGATGGCAAGTTTGATGTGGCATACTACGCTAATGTGCTGATTTCATCTGATGGCTCCATGTACTGGCTTCCCCCTGCTATCTATCGCAGCACCTGTGCTATTGAAATCACCTACTTCCCTTTTGACTGGCAGAACTGCACACTGGTCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000034307:ENSDART00000136428:4
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(16.6=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(24.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACACAGTGTGGCTACCAGAC
R:
TGTGCAGTTCTGCCAGTCAAA
Band lengths:
183-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]