RnoINT0036327 @ rn6
Intron Retention
Gene
ENSRNOG00000014698 | Chrnb1
Description
cholinergic receptor nicotinic beta 1 subunit [Source:RGD Symbol;Acc:2349]
Coordinates
chr10:56391811-56392462:-
Coord C1 exon
chr10:56392290-56392462
Coord A exon
chr10:56391959-56392289
Coord C2 exon
chr10:56391811-56391958
Length
331 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
ACTCCACCCTACACACACAGGTT
3' ss Score
5.51
Exon sequences
Seq C1 exon
ATCTTCATTCACAAGCTCCCTCCATACCTGGGTCTGAAGAGGCCCAAACCCGAGAGAGACCAACTACCCGAACCACATCACTCCTTCTCCCCAAGGAGTGGCTGGGGCCGAGGAACTGATGAATATTTCATACGGAAGCCTCCATGTGATTTTCTTTTCCCTAAACTTAACAG
Seq A exon
GTAAGACCTAAGTCAATTACTTGGGCAAGGGAGAGCTACAGCTCCCAGAAGACAGTGGAAGGTCGTGTGGCCTAGCACCATGGGAGTTGTACTAACCCTGTCCGTGCTTGAATTACAAAAAGGTAGCATTTTAAAGATTAAAGAGCCAGAAACTTGCAAAAGTCTGGAGAGGTCGGTGCTGCCGGAGAGATCCGGAAGGGCTCGCTCAGGTTTTAATAAGTACCAGGTTGTAGGAGGAGGCAGCAGGAGCAGGGTCGACAGGTCAACTGGAACTTGTTTCTCTTTGAACCCAGTGTGTGGTCAAACACACTACTCCACCCTACACACACAG
Seq C2 exon
GTTTCAGCCTGAATCACCTGCTCCGGACCTGAGACGATTTATCGATGGTCCACCCCGGGCTGTAGGTCTGCCTCAGGAGCTACGCGAGGTCATTTCTTCCATCAGCTACATGGCCCGACAACTTCAGGAACAGGAGGACCACGATGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014698:ENSRNOT00000019947:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.224 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(24.2=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(20.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTCATTCACAAGCTCCCTCC
R:
CATCGTGGTCCTCCTGTTCCT
Band lengths:
318-649
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]