RnoINT0036284 @ rn6
Intron Retention
Gene
ENSRNOG00000013829 | Chrna3
Description
cholinergic receptor nicotinic alpha 3 subunit [Source:RGD Symbol;Acc:2345]
Coordinates
chr8:59604870-59605159:-
Coord C1 exon
chr8:59605020-59605159
Coord A exon
chr8:59604915-59605019
Coord C2 exon
chr8:59604870-59604914
Length
105 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
ACTTCAATCTCACTTTCTAGGAT
3' ss Score
10.92
Exon sequences
Seq C1 exon
CGGCCAGTGCCTCAGAAGCTGAGCACCGCCTGTTCCAGTACCTGTTCGAAGATTACAACGAGATCATCCGGCCAGTGGCTAATGTGTCCCATCCAGTCATCATCCAGTTTGAGGTGTCCATGTCTCAGCTGGTGAAGGTG
Seq A exon
GTAAGTGCTGGGGCCACAAGATGTGCCCGTGGGGTTCTAGGGAAGTCTGTCTGCAATGCGCTTTATTTTGGTCAGTCTTCTGTCAACTTCAATCTCACTTTCTAG
Seq C2 exon
GATGAAGTAAACCAGATCATGGAAACCAACCTGTGGCTGAAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013829:ENSRNOT00000019307:2
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=PU(18.8=83.0)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(6.8=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:
GCCAGTGCCTCAGAAGCTG
R:
TTGCTTCAGCCACAGGTTG
Band lengths:
183-288
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]