DreINT0046772 @ danRer10
Intron Retention
Gene
ENSDARG00000022532 | chrnb1l
Description
cholinergic receptor, nicotinic, beta 1 (muscle) like [Source:ZFIN;Acc:ZDB-GENE-060811-1]
Coordinates
chr7:22324169-22324657:+
Coord C1 exon
chr7:22324169-22324392
Coord A exon
chr7:22324393-22324478
Coord C2 exon
chr7:22324479-22324657
Length
86 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGA
5' ss Score
7.16
3' ss Seq
TATGGTCTAACCCTCTGCAGGTT
3' ss Score
8.97
Exon sequences
Seq C1 exon
GTGAGAAGATGACTCTGTCCATCTCAGTCCTCATTGCACTCACTGTTTTCATGCTGCTGCTGGCTGACAAAGTTCCAGAAACATCACTTGCCATTCCTATCATTGTTAACTATGTCATGTTTACTATGATCCTGGTCACTTTCTCCGTCATCCTTAGCGTGGTAGTCCTAAACCTCCACCACAGGACACCCAGCACACACCACATGCCCGGATGGGTGCGCAAG
Seq A exon
GTGCGACAACCAAATATTTAAATTTACTGTAAACTGCAACTTTCCCATAAATTTGAACATGCTTCTTATGGTCTAACCCTCTGCAG
Seq C2 exon
GTTTTCATCAACTTACTGCCTCGCTACTTGGGTGTGCTGAGGCCCACCCCTGAGGAACCAGTGGAGGAAGAGCCAAAAGAAAACGTCCCAATGGGTTGTTTGGGAAATAGCCTCAGACCTGGAGGTGAATATTTTATCCGAAAGATCAATCCAGAGCTGGTAATGCCATGGAGAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000022532:ENSDART00000149144:8
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=0.217
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(31.4=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(25.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTGGTCACTTTCTCCGTCA
R:
TTGGCTCTTCCTCCACTGGTT
Band lengths:
171-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]