RnoINT0036351 @ rn6
Intron Retention
Gene
ENSRNOG00000019527 | Chrnd
Description
cholinergic receptor nicotinic delta subunit [Source:RGD Symbol;Acc:2352]
Coordinates
chr9:94290994-94291789:+
Coord C1 exon
chr9:94290994-94291194
Coord A exon
chr9:94291195-94291677
Coord C2 exon
chr9:94291678-94291789
Length
483 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGC
5' ss Score
4.2
3' ss Seq
AGCTAGGTCTGCCTGTCCAGGTG
3' ss Score
3.95
Exon sequences
Seq C1 exon
AGAACGGTGAGTGGGAAATAGTTCACCGGGCAGCCAAGGTCAACGTGGACCCCAGTGTCCCAATGGACAGCACCAACCACCAAGACGTCACCTTCTACCTCATCATCCGCCGCAAGCCGCTCTTCTACATCATCAACATCCTGGTACCCTGTGTGCTCATCTCCTTCATGATCAACCTGGTCTTCTACCTGCCAGGCGACT
Seq A exon
GTGAGCCTCATGTCCCACTCCCTGGCTCCCTGCCAGCCTCTCCCAAGGCCACTTAGCACAGGTGTTCCCAGTCCTAACCCTGCTCTTTAAGGTGGGGGGAGAAATGACCATGGATGATGTTCTGTATAAGAACTGAGGGATAGCAGGCAGGCCTGGCTGGTCTTTGGATTAGGAACTGCATGCTAGAGTTCTACCAGGATGCCTGAGAGCTTTCTGAGGGGCTGGGGATACATAACAGTTAGCGTAGCTCACCTAACAAGTTCTATGCTTGCAATGTTTTGAGAAAAGGGCAGAGAGTTTGAGTTCAGGCTACTTGCCTAGACTACTCAGCTAATAAGCTGTGGTGCCAGGATTTAAAGACAGGCACAGGATGCCATACCCTATGATATGTATCGTGGCACTGTGAACATTGGTATCGAGGCCTGTCATGGGGTGACTTTGTGGACTCCAAGTGTGAGCCTCCAGCTAGGTCTGCCTGTCCAG
Seq C2 exon
GTGGAGAGAAGACCTCGGTGGCCATCTCAGTGCTCCTGGCCCAATCTGTCTTCCTGTTGCTTATCTCCAAGAGGCTGCCGGCCACATCCATGGCCATTCCTTTGGTAGGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019527:ENSRNOT00000026504:7
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(8.9=30.9)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(15.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGAGTGGGAAATAGTTCACCG
R:
ACCAAAGGAATGGCCATGGAT
Band lengths:
302-785
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]