DreINT0046822 @ danRer10
Intron Retention
Gene
ENSDARG00000086647 | chrng
Description
cholinergic receptor, nicotinic, gamma [Source:ZFIN;Acc:ZDB-GENE-030131-3805]
Coordinates
chr2:45238282-45238980:+
Coord C1 exon
chr2:45238282-45238396
Coord A exon
chr2:45238397-45238865
Coord C2 exon
chr2:45238866-45238980
Length
469 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
TCTTCTCTCTGTTTGGGCAGGTA
3' ss Score
9.7
Exon sequences
Seq C1 exon
CTGGAGGACAGAAATGTACTATGACCATCTGTATTCTGCTCGGCCAGACTGTCTTCCTGTTCCTTATCGCTAAGAAAGTGCCAGAAACATCACAAGCGGTTCCTCTCATTGGGAA
Seq A exon
GTGAGTATGTGCCTTAATTAATAAATCACACCATTTCGGCGATTACCAATAAACTCACAATGTGTGTGTGCATGTGTGTGTGTAATATAAGCTAAGATTAAACTGCTTATATGTAGTATCGTACAGAGTTTTGGGGTCAGCATTATATTTTTAAACAAAGTAATTCATACAGCAAGGATGCATTATAACACATCCAAAAAAAAAAAAAACTTTAATTATATGTATTGTTATATAACCATTATTTTAAAAGGTTTCATGTATTGAATGATTCAGGTTATGTGTGGTTTATGGGTAATTTTAATTTTAAATTTTTTTCTAAATATCTGCTTTTGGGTTCAACAGAAAAAAAGGAAATAGTTAACAGTTAGGAAATTTACATTTTTGGGTGAACAGTTCTTATAAAATTGGTTGCTCAAAATTGATAGTTAAAAACTTTTAAAGTGTGAAAATCTTCTCTCTGTTTGGGCAG
Seq C2 exon
GTATCTGATGTTTGTGATGTCGGTGACCACAATAACTGTGATGAACTGTGTGGTGGTGTTAAACGTCTCTCTGAGAACTCCAAACACTCACCCCATGAGCAACACCATCAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000086647:ENSDART00000123966:8
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=0.000
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(14.8=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(14.8=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:
GGAGGACAGAAATGTACTATGACCA
R:
CTGATGGTGTTGCTCATGGGG
Band lengths:
224-693
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]