RnoINT0036331 @ rn6
Intron Retention
Gene
ENSRNOG00000020778 | Chrnb2
Description
cholinergic receptor nicotinic beta 2 subunit [Source:RGD Symbol;Acc:2350]
Coordinates
chr2:189092902-189094719:-
Coord C1 exon
chr2:189094610-189094719
Coord A exon
chr2:189093872-189094609
Coord C2 exon
chr2:189092902-189093871
Length
738 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGT
5' ss Score
7.33
3' ss Seq
ACTGCCCCATTCCTTGGCAGTGC
3' ss Score
7.53
Exon sequences
Seq C1 exon
GAGTGGGAAGATTACCGCCTCACATGGAAGCCTGAGGACTTCGACAATATGAAGAAAGTCCGGCTCCCTTCCAAACACATCTGGCTCCCAGATGTGGTTCTATACAACAA
Seq A exon
GTAGGTGACCCTGAAGTGATAGGAAGGTTAGGGAAGTCCAGAGGGTGTGCTCGGGAGGGGATCAGATCACGGCAGGTGGGAATACAAGATAAACATGCTGTTGTGAAAGGGAGTGGGCTTTCTCTTAGCAGGCGGTAGGCAGGCATATCTACACAGACAGACCCAACCATTGGGATGCAGTGTAGACAGTTATGGTGACTTGGACCTTGACCAGCTCCTTCCAGCCACTTAGATTGCTGGGGGTAAGGATATTGAAGACTGACAGTTCTCAGTGCCTAACTTGATCTAAGAATGAGAACTTCTGGAAGTCTGGGTGGTGAGAAAGAACTTATGGTCCTAGTTTCACCTAGATTCTGTTCTGCTCCCTTCAGTGAATCTTCTTCCCTTTAAGGCACAAAACTCTCCCACACCCTTTCATTGCTTGGGGCTCCTTGCCCTGGCCTCTCCAGCTCCCTCTCCTCTTCACTCTCATGAGCACTAATCAGCCTAAATGATGTGGGACAAGTAGCAGAGGTGCTCCTCCCCCATCATTCTCTTTAACCACTGAATGAATATGCATGCCTCCTGACCAGGAGGAGACCCATTCTTACTACCAACCTATATACATTCCCACCCTATCTCGATTTCTGGGCCATCTCAGTGCATTAGATGGGGACTCCCAGCCTGGGTCCTTCTTGCTGGGTAGATGAGTGGGATTCAGACCCTCAAGCCAGGGCTGACTGCCCCATTCCTTGGCAG
Seq C2 exon
TGCTGACGGCATGTACGAAGTCTCCTTCTATTCCAATGCTGTGGTCTCCTATGATGGCAGCATCTTTTGGCTACCACCTGCCATCTACAAGAGTGCATGCAAGATTGAGGTGAAGCACTTCCCATTTGACCAGCAGAATTGCACCATGAAGTTTCGCTCATGGACCTACGACCGTACTGAGATTGACCTGGTGCTCAAAAGTGATGTGGCCAGTCTGGATGACTTCACACCCAGCGGGGAGTGGGACATCATCGCACTGCCAGGCCGACGCAACGAGAACCCAGACGACTCCACCTATGTGGACATCACCTATGACTTCATCATTCGTCGCAAACCACTCTTCTACACTATCAACCTCATCATCCCCTGCGTACTCATCACCTCGCTGGCCATCCTGGTCTTCTACCTGCCCTCAGACTGTGGTGAAAAGATGACACTTTGTATTTCTGTGCTGCTAGCACTCACGGTGTTCCTGCTGCTCATCTCCAAGATTGTGCCTCCCACCTCCCTCGATGTACCGCTGGTGGGCAAGTACCTCATGTTCACCATGGTGCTAGTCACCTTCTCCATCGTCACCAGCGTGTGTGTGCTCAATGTGCACCACCGCTCGCCTACCACGCACACCATGGCCCCCTGGGTCAAGGTGGTCTTCCTGGAGAAGCTGCCCACCCTGCTCTTCCTGCAGCAGCCACGCCACCGCTGTGCACGTCAGCGTCTGCGCTTGAGGAGGCGCCAGCGAGAGCGTGAGGGCGCAGGCGCGCTTTTCTTCCGTGAAGGTCCTGCGGCTGACCCATGTACCTGCTTTGTCAACCCTGCATCAGTGCAGGGCTTGGCTGGGGCTTTCCGAGCTGAGCCCACTGCAGCCGGCCCGGGGCGCTCTGTGGGGCCATGCAGCTGTGGCCTCCGGGAAGCAGTGGATGGCGTACGCTTCATTGCGGACCACATGCGAAGTGAGGATGATGACCAGAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020778:ENSRNOT00000028200:4
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=FE(17.5=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(54.4=34.6),PF0293211=Neur_chan_memb=PU(86.1=63.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGGGAAGATTACCGCCTCA
R:
GCTGGGTGTGAAGTCATCCAG
Band lengths:
344-1082
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]