RnoINT0036275 @ rn6
Intron Retention
Gene
ENSRNOG00000020293 | Chrna10
Description
cholinergic receptor nicotinic alpha 10 subunit [Source:RGD Symbol;Acc:620142]
Coordinates
chr1:167208439-167209749:-
Coord C1 exon
chr1:167209595-167209749
Coord A exon
chr1:167208972-167209594
Coord C2 exon
chr1:167208439-167208971
Length
623 bp
Sequences
Splice sites
5' ss Seq
CAAGTACTT
5' ss Score
1.99
3' ss Seq
CCTATCCCTCCTGTCTACAGGGC
3' ss Score
10.2
Exon sequences
Seq C1 exon
GATGAACGGAACCAGGTGCTGACCTTGTACCTGTGGATCCGGCAAGAGTGGACAGATGCCTACCTACACTGGGACCCCAAAGCCTATGGTGACCTGGACGCAATCCGAATTCCCAGCCGTCTAGTGTGGCGACCAGACATCGTACTTTACAACAA
Seq A exon
GTACTTCCTGATGCCCCCCTTTTCTTTAGAGTTGCCCATTTGCCCTTGACATACACTGAGTCCTCTCCTAACACCTAAATAGCTGCTTAGACATCTAGGACACTTACCCCAGGAGCCCCTTTACCACTCCATGTCACTTTCAGGCCAACTCAAGCTTGATGGCTGCAGGGAACCTGCTCTGTGATCCAAGCCAGTTGTAGCTCTCAAAGACAACTGTCTTGGGTCCATATGCTCCTCTGTGGCAACACCACCCTCCTAGGCTATGGACCACTTGAGATCTCACCAGCCAACAGCCTAGTCCTTGGGGGCACTCCTTTATGCCACCTTTAGGTGCTTTGCATCTCCCAGCCAAAACACAGCATTGTGCATCTTCTGGGTACATCTAATGAGTTCTACAGATGACTCCCAAGGTCAGTGTGAGGTTCTGGGGTTGCAGAAGTCTTTAAACTCTGCTCCCAGTCCTTCCAAGCCTTCAAATGCTGCCTCCTCCAGACCTTCAAAGACCTAAATGAGCCTAATGAGGTTCCCGCCACGGTACTGCCCTGACCACTAAAGCCCGACTAGTGACAGTAGATCCACCCTGTTCATGGGCCCCGGGCGAATCCTATCCCTCCTGTCTACAG
Seq C2 exon
GGCGGACACGCAGCCACCTGCCTCAGCCAGCACCAACGTGGTTGTGCGGCACGACGGCGCTGTGCGCTGGGACGCACCGGCCATCACACGCAGCTCGTGCCGTGTGGACGTGTCTGCCTTCCCTTTTGACGCGCAGCGCTGCGGCCTGACCTTCGGCTCATGGACGCACGGTGGGCACCAGCTGGATGTGCGACCTCGGGGCACTTCCGCCAGTCTGGCCGACTTCGTGGAGAACGTTGAATGGCGGGTGCTGGGCATGCCAGCACGCAGGCGGGTCCTCACCTATGGCTGCTGCTCTGAGCCCTACCCAGATGTGACCTTTACTCTGTTGCTGCGCCGCCGCGCTGCAGCCTACGTGTGCAACCTCCTGCTGCCCTGTGTGTTCATCTCCCTGCTGGCACCTCTGGCCTTCCACCTGCCTGCTGACTCTGGGGAGAAGGTGTCTCTGGGCGTCACCGTGCTCCTGGCGCTCACCGTCTTCCAGCTGATCCTGGCCGAGAGCATGCCACCTGCAGAGAGTGTGCCACTCATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020293:ENSRNOT00000027507:3
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=0.017
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(24.6=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(55.6=64.2),PF0293211=Neur_chan_memb=PU(37.8=31.3)
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCGACCAGACATCGTACTT
R:
GTCACATCTGGGTAGGGCTCA
Band lengths:
347-970
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]