Rrp9 MGI Mouse Gene Detail - MGI:2384313 - ribosomal RNA processing 9, U3 small nucleolar RNA binding protein

Symbol

Rrp9
Name

ribosomal RNA processing 9, U3 small nucleolar RNA binding protein
Synonyms

55kDa, D9Wsu10e, MGC:25949, Rnu3ip2, U3-55k

Feature Type

protein coding gene
IDs

MGI:2384313
NCBI Gene: 27966
Alliance

gene page
Transcription Start Sites

3 TSS

Sequence Map

Chr9:106354508-106362614 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 9, 57.59 cM
Mapping Data

6 experiments

SNPs within 2kb

304 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2384313	protein coding gene	Chr9:106353162-106362623 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0035235	protein coding gene	Chr9:108290149-108300713 (+)
A/J	MGP_AJ_G0035214	protein coding gene	Chr9:104372233-104381744 (+)
AKR/J	MGP_AKRJ_G0035146	protein coding gene	Chr9:106974383-106983846 (+)
BALB/cJ	MGP_BALBcJ_G0035208	protein coding gene	Chr9:104057869-104069369 (+)
C3H/HeJ	MGP_C3HHeJ_G0034918	protein coding gene	Chr9:107388240-107397789 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0035728	protein coding gene	Chr9:111271756-111281250 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0032626	protein coding gene	Chr9:101862745-101872431 (+)
CAST/EiJ	MGP_CASTEiJ_G0034229	protein coding gene	Chr9:107293192-107303868 (+)
CBA/J	MGP_CBAJ_G0034886	protein coding gene	Chr9:115204898-115214200 (+)
DBA/2J	MGP_DBA2J_G0035047	protein coding gene	Chr9:103834932-103844466 (+)
FVB/NJ	MGP_FVBNJ_G0034995	protein coding gene	Chr9:102614433-102624785 (+)
LP/J	MGP_LPJ_G0035123	protein coding gene	Chr9:108507472-108517954 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0035034	protein coding gene	Chr9:116798789-116808859 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0035749	protein coding gene	Chr9:107226164-107235614 (+)
PWK/PhJ	MGP_PWKPhJ_G0033936	protein coding gene	Chr9:104133923-104143428 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0033771	protein coding gene	Chr9:107295045-107315788 (+)
WSB/EiJ	MGP_WSBEiJ_G0034350	protein coding gene	Chr9:107121108-107130634 (+)

Human Ortholog

RRP9, ribosomal RNA processing 9, U3 small nucleolar RNA binding protein

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

RRP9, ribosomal RNA processing 9, U3 small nucleolar RNA binding protein
Synonyms

RNU3IP2, U3-55K
Links

HGNC:16829

NCBI Gene ID: 9136

neXtProt AC: NX_O43818

UniProt: O43818
Chr Location

3p21.2; chr3:51933429-51941904 (-) GRCh38

MGI Vertebrate Homology

Rrp9 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: RRP9
Gene Tree

Rrp9

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Phenotype Summary

5 phenotype references

All Mutations and Alleles

3
Gene trapped

2
Targeted

1
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

15 strains or lines available

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All GO Annotations

14
GO References

4

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

712
Tissues

2
cDNA Data

51
Literature Summary

1

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase rrp9

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All Sequences

41
RefSeq

2
UniProt

2
CCDS

CCDS23481.1

Ensembl

ENSMUSG00000041506 (Evidence)
NCBI Gene

27966

			Length	Strain/Species	Flank
genomic	27966	NCBI Gene Model \| MGI Sequence Detail	8107	C57BL/6J	± kb
transcript	NM_145620	RefSeq \| MGI Sequence Detail	1537	ZRU/MplStud
polypeptide	Q91WM3	UniProt \| EBI \| MGI Sequence Detail	475	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000014314 U3 small nucleolar RNA-interacting protein 2

(term hierarchy)
InterPro Domains

IPR020472 G-protein beta WD-40 repeat

IPR039241 Ribosomal RNA-processing protein Rrp9-like

IPR001680 WD40 repeat

IPR036322 WD40-repeat-containing domain superfamily

IPR015943 WD40/YVTN repeat-like-containing domain superfamily
GlyGen

Q91WM3 1 site, 1 O-linked glycan (1 site)

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All nucleic 54

Genomic 2

cDNA 51

Primer pair 1

Microarray probesets 2

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MGD-MRK-34098, MGI:106404, MGI:2154779

Summaries

All 33

Developmental Gene Expression 1

Gene Ontology 4

Phenotypes 5
Earliest

J:50869 Ko MSH, et al., Genome-wide mapping of unselected transcripts from extraembryonic tissue of 7.5-day mouse embryos reveals enrichment in the t-complex and under-representation on the X chromosome. Hum Mol Genet. 1998 Nov;7(12):1967-78
Latest

J:173534 Skarnes WC, et al., A conditional knockout resource for the genome-wide study of mouse gene function. Nature. 2011 Jun 16;474(7351):337-42

TSS for Rrp9:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr86920	Chr9:106354462-106354473 (+)	-40 bp
Tssr86921	Chr9:106354478-106354551 (+)	7 bp
Tssr86922	Chr9:106361680-106361692 (+)	7,178 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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