MmuINT0036271 @ mm9
Intron Retention
Gene
ENSMUSG00000031492 | Chrnb3
Description
cholinergic receptor, nicotinic, beta polypeptide 3 [Source:MGI Symbol;Acc:MGI:106212]
Coordinates
chr8:28503772-28504968:+
Coord C1 exon
chr8:28503772-28503881
Coord A exon
chr8:28503882-28504085
Coord C2 exon
chr8:28504086-28504968
Length
204 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
GGTAACCACTTTCATGGCAGTGC
3' ss Score
3.21
Exon sequences
Seq C1 exon
GAATGGACAGACCAAAAATTACGATGGAATCCCGAAGACTATGGTGGAATTAATTCGATAAAGGTTCCATCGGAGTCGCTCTGGCTGCCTGACATAGTTCTCTTTGAAAA
Seq A exon
GTAAGTATCTTAAAAGAATACCGCATTGGTCAGACTAACACCAGATGCAGAAAGTCTGATTTGGGCAGAAGAATTAACTATGTATTAAAGTGGTTTCTCTGTAAAACATGACTTGACATTATGGTAGGAAAAGAAGGCAATGTAGATTGCCTCCAAACAGTGAGTGTTCAGCCATTCACTAACGGGTAACCACTTTCATGGCAG
Seq C2 exon
TGCTGACGGACGTTTTGAGGGCTCTCTCATGACCAAGGCCATTGTGAAATCCAGCGGAACCGTCAGTTGGACTCCTCCCGCCAGCTACAAAAGTTCCTGTACCATGGATGTCACATTTTTCCCGTTCGATAAGCAGAACTGCTCAATGAAGTTCGGATCCTGGACTTACGATGGTACCATGGTCGACCTCATTCTGATCAATGAAAACGTTGACCGGAAAGACTTTTTTGATAACGGAGAGTGGGAGATACTAAATGCAAAGGGGATGAAGGGCAACAGAAGAGAAGGCTTTTACTCCTATCCGTTTGTTACCTACTCTTTTGTTCTGAGACGCCTGCCCCTGTTTTACACCCTCTTTTTGATAATCCCCTGCCTGGGGCTGTCTTTTCTCACGGTCCTGGTGTTCTACCTACCCTCCGACGAAGGGGAAAAACTCTCCTTATCCACCTCGGTTTTGGTTTCTTTGACAGTGTTTCTTTTAGTAATCGAAGAAATAATCCCGTCTTCTTCAAAAGTCATCCCTCTCATTGGGGAGTACCTCCTCTTCATTATGATATTTGTCACGCTGTCTATTATTGTCACGGTTTTTGTAATTAATGTCCACCACAGATCTTCCTCAACGTACCATCCCATGGCCCCCTGGGTGAAGAGGCTGTTTCTGGAAAAACTCCCGAGATGGCTTTGCATGAAGGACCCCAGGGACCGCTTCTCTTTCCCCGATGGAACGGAGAGTAAGGGAACCGTGAGGGGGAAATTTCCAGGGAAAAAGAAGCAGACTCCTACCAGTGATGGAGAAAGAGTTCTGGTCGCTTTCCTGGAGAAGGCCTCTGAGTCCATCAGATACATCTCGAGGCATGTGAAGAAGGAACACTTCATCAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031492-Chrnb3:NM_027454:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.031
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(17.6=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(55.1=38.3),PF0293211=Neur_chan_memb=WD(100=43.7),PF0293211=Neur_chan_memb=PU(62.1=18.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCTGCCTGACATAGTTCTCT
R:
TGTTGCCCTTCATCCCCTTTG
Band lengths:
307-511
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: