Ctr9 MGI Mouse Gene Detail - MGI:109345 - CTR9 homolog, Paf1/RNA polymerase II complex component

Symbol

Ctr9
Name

CTR9 homolog, Paf1/RNA polymerase II complex component
Synonyms

Sh2bp1, Tsbp, Tsp

Feature Type

protein coding gene
IDs

MGI:109345
NCBI Gene: 22083
Alliance

gene page
Transcription Start Sites

6 TSS

Sequence Map

Chr7:110628158-110655584 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 7, 57.98 cM
Mapping Data

6 experiments

SNPs within 2kb

599 from dbSNP Build 142
Strain Annotations

18
RFLP

1

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_109345	protein coding gene	Chr7:110628158-110655584 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0032863	protein coding gene	Chr7:114536798-114564188 (+)
A/J	MGP_AJ_G0032846	protein coding gene	Chr7:111699796-111727311 (+)
AKR/J	MGP_AKRJ_G0032778	protein coding gene	Chr7:114514109-114541363 (+)
BALB/cJ	MGP_BALBcJ_G0032851	protein coding gene	Chr7:111388279-111415680 (+)
C3H/HeJ	MGP_C3HHeJ_G0032561	protein coding gene	Chr7:114502668-114531202 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0033357	protein coding gene	Chr7:119269884-119299697 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0030329	protein coding gene	Chr7:113309646-113340600 (+)
CAST/EiJ	MGP_CASTEiJ_G0031889	protein coding gene	Chr7:106088791-106120813 (+)
CBA/J	MGP_CBAJ_G0032534	protein coding gene	Chr7:123169198-123198722 (+)
DBA/2J	MGP_DBA2J_G0032686	protein coding gene	Chr7:109796765-109824414 (+)
FVB/NJ	MGP_FVBNJ_G0032639	protein coding gene	Chr7:109645521-109672872 (+)
LP/J	MGP_LPJ_G0032780	protein coding gene	Chr7:116047427-116075192 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0032671	protein coding gene	Chr7:124819349-124848465 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0033377	protein coding gene	Chr7:113518227-113547019 (+)
PWK/PhJ	MGP_PWKPhJ_G0031596	protein coding gene	Chr7:102625844-102654520 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0031444	protein coding gene	Chr7:100264501-100291588 (+)
WSB/EiJ	MGP_WSBEiJ_G0032002	protein coding gene	Chr7:114371458-114401835 (+)

Human Ortholog

CTR9, CTR9 homolog, Paf1/RNA polymerase II complex component

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

CTR9, CTR9 homolog, Paf1/RNA polymerase II complex component
Synonyms

p150, p150TSP, SH2BP1, TSBP
Links

HGNC:16850

NCBI Gene ID: 9646

neXtProt AC: NX_Q6PD62

UniProt: Q6PD62
Chr Location

11p15.4; chr11:10751018-10801625 (+) GRCh38

MGI Vertebrate Homology

Ctr9 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: CTR9
Gene Tree

Ctr9

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Phenotype Summary

4 phenotypes from 1 allele in 1 genetic background
18 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

8
Chemically induced (other)

1
Endonuclease-mediated

1
Gene trapped

2
Radiation induced

1
Targeted

3
Genomic Mutations

2 involving Ctr9
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

49 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

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All GO Annotations

34
GO References

13

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

714
Tissues

7
cDNA Data

145
Literature Summary

2

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase ctr9

ZFIN ctr9

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All Sequences

63
RefSeq

2
UniProt

4
CCDS

CCDS21750.1

Ensembl

ENSMUSG00000005609 (Evidence)
NCBI Gene

22083

			Length	Strain/Species	Flank
genomic	22083	NCBI Gene Model \| MGI Sequence Detail	27427	C57BL/6J	± kb
transcript	NM_009431	RefSeq \| MGI Sequence Detail	4317	ZRU/MplStud
polypeptide	Q62018	UniProt \| EBI \| MGI Sequence Detail	1173	Not Applicable

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UniProt

4 Sequences
Protein Ontology

PR:000006017 RNA polymerase-associated protein CTR9

(term hierarchy)
InterPro Domains

IPR031101 RNA polymerase-associated protein Ctr9

IPR011990 Tetratricopeptide-like helical domain superfamily

IPR019734 Tetratricopeptide repeat

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All nucleic 146

cDNA 146

Microarray probesets 7

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MGD-MRK-33783, MGD-MRK-38390, MGI:2141821

Summaries

All 56

Developmental Gene Expression 2

Gene Ontology 13

Phenotypes 18
Earliest

J:88307 Giometti CS, et al., The analysis of recessive lethal mutations in mice by using two-dimensional gel electrophoresis of liver proteins. Mutat Res. 1990 Sep;242(1):47-55
Latest

J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136

TSS for Ctr9:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr68531	Chr7:110627944-110627957 (+)	-207 bp
Tssr68532	Chr7:110627972-110627992 (+)	-176 bp
Tssr68533	Chr7:110628168-110628179 (+)	16 bp
Tssr68534	Chr7:110628186-110628212 (+)	41 bp
Tssr68535	Chr7:110628214-110628225 (+)	62 bp
Tssr68536	Chr7:110628226-110628237 (+)	74 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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