RnoINT0036324 @ rn6
Intron Retention
Gene
ENSRNOG00000014698 | Chrnb1
Description
cholinergic receptor nicotinic beta 1 subunit [Source:RGD Symbol;Acc:2349]
Coordinates
chr10:56399577-56400683:-
Coord C1 exon
chr10:56400536-56400683
Coord A exon
chr10:56399787-56400535
Coord C2 exon
chr10:56399577-56399786
Length
749 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
TGTCTCCCTCCCTCCTCCAGAGA
3' ss Score
11.46
Exon sequences
Seq C1 exon
GTCACCTACTTCCCCTTTGACTGGCAGAATTGCACCATGGTGTTTAGTTCCTACAGCTATGACAGCTCTGAGGTCAGCCTGAAGACAGGCCCAGATCCTGATGGACAGGAGAGGCAGGAAATCTACATCCATGAAGGGACCTTCATCG
Seq A exon
GTGAGTGAGCACGGTTCTCACATCCAAGGCTGATAGACAGGTTCTGTATTGATGCTCAGGGAAGCTGGTGGGTTCAGCAGCCTGGGGATAATGATCAATACTGCAAATGTGGAAAAGGAAACCAAGTGTGGTAAGGCAGACCTTTAATGTGGAGGGGTGAGTACCCTGTCGCTGTCTTCAGACACACCAGAAGAGGGCATCGGATCCCATTACAGATGGTTGTGAGCTACCATGTGGGTGCTGAGAATTGAACTCAGGACCTCTGGAAGTCAGTGCTCTCGACCATTGAGCCATCTTTCCAGCCCGGCTGAGCTTTTTTTTTTTTTTTTTTTAAATGTATTTATTTATTATTTATGAGTACACTGTAGCTGTCTTTAGACACACCCCAGAAGAGAGCATCAGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCCCTGGCTGAGATTCTTAAAACAGAAAAACAAAAAACACAAGACACACAGGGAAGTGGTGGAAGCTCTTGAAATGTAAATTTGACTGAGTTCAGTCCTGGGAGCCTAGAGTAGAAGGGGAGAACACGGAAGCTGAGACTTCTTCATTAGAGGTGGGCTGCCCAGAGGCGTGCCATATCAGACACTGACTAGGGCAGCTACCATGCCTGAGCTTACTTACCCTGTCTCCCTCCCTCCTCCAG
Seq C2 exon
AGAATGGTCAATGGGAGATTATCCACAAACCCTCTAGGTTAATCCACCTTCCAGGGGATCGAAGAGGAGGGAAGGAAGGACATCGTGAGGAAGTTATCTTCTATCTCATTATTCGGAGGAAGCCTCTCTTCTACCTGGTCAATGTCATTGCCCCGTGCATCCTCATCACCCTCCTGGCCATCTTTGTTTTCTACCTTCCACCAGATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014698:ENSRNOT00000019947:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.160 A=NA C2=0.028
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(22.4=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(18.7=57.7),PF0293211=Neur_chan_memb=PU(81.5=31.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTTCCCCTTTGACTGGCAGA
R:
CTGCATCTGGTGGAAGGTAGA
Band lengths:
351-1100
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]