Prdm11 MGI Mouse Gene Detail - MGI:2685553

Symbol

Prdm11
Name

PR domain containing 11
Synonyms

8030443D09Rik

Feature Type

protein coding gene
IDs

MGI:2685553
NCBI Gene: 100042784
Alliance

gene page
Transcription Start Sites

7 TSS

Sequence Map

Chr2:92802363-92876512 bp, - strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 2, 51.37 cM
Mapping Data

2 experiments

SNPs within 2kb

2031 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2685553	protein coding gene	Chr2:92795496-92876825 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0026172	protein coding gene	Chr2:94441811-94530953 (-)
A/J	MGP_AJ_G0026133	protein coding gene	Chr2:90602744-90687317 (-)
AKR/J	MGP_AKRJ_G0026114	protein coding gene	Chr2:93134310-93218857 (-)
BALB/cJ	MGP_BALBcJ_G0026142	protein coding gene	Chr2:90796076-90877870 (-)
C3H/HeJ	MGP_C3HHeJ_G0025893	protein coding gene	Chr2:93416460-93503248 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0026593	protein coding gene	Chr2:97660951-97748119 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0023984	protein coding gene	Chr2:87097601-87176811 (-)
CAST/EiJ	MGP_CASTEiJ_G0025358	protein coding gene	Chr2:93990595-94074448 (-)
CBA/J	MGP_CBAJ_G0025871	protein coding gene	Chr2:101061091-101146633 (-)
DBA/2J	MGP_DBA2J_G0026007	protein coding gene	Chr2:90214899-90296784 (-)
FVB/NJ	MGP_FVBNJ_G0025970	protein coding gene	Chr2:89311506-89404374 (-)
LP/J	MGP_LPJ_G0026111	protein coding gene	Chr2:94630507-94719401 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0025996	protein coding gene	Chr2:104007480-104094206 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0026647	protein coding gene	Chr2:93206444-93298504 (-)
PWK/PhJ	MGP_PWKPhJ_G0025093	protein coding gene	Chr2:89954547-90036864 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0024894	protein coding gene	Chr2:92782269-92862390 (-)
WSB/EiJ	MGP_WSBEiJ_G0025425	protein coding gene	Chr2:93826015-93911278 (-)

Human Ortholog

PRDM11, PR/SET domain 11

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

PRDM11, PR/SET domain 11
Synonyms

PFM8
Links

HGNC:13996

NCBI Gene ID: 56981

neXtProt AC: NX_Q9NQV5

UniProt: Q9NQV5
Chr Location

11p11.2; chr11:45094159-45235110 (+) GRCh38

MGI Vertebrate Homology

Prdm11 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: PRDM11
Gene Tree

Prdm11

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Phenotype Summary

10 phenotypes from 1 allele in 1 genetic background
1 phenotype from multigenic genotypes
11 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
Radiation induced

1
Targeted

5
Genomic Mutations

4 involving Prdm11
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

22 strains or lines available

Mice homozygous for a null allele show increased cell numbers in bronchioalveolar lavages and changes in B cell, CD4+ T cell and neutrophil counts following ovalbumin airway challenge, and a small decrease in megakaryocytic progenitors and a small increase in hematopoietic progenitor cell proliferation.

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All GO Annotations

25
GO References

5

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

708
Tissues

2
cDNA Data

2
Literature Summary

2

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

GEISHA PRDM11

Xenbase prdm11

ZFIN prdm11

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All Sequences

57
RefSeq

19
UniProt

4
CCDS

CCDS50647.1, CCDS89522.1

Ensembl

ENSMUSG00000075028 (Evidence)
NCBI Gene

100042784

			Length	Strain/Species	Flank
genomic	ENSMUSG00000075028	Ensembl Gene Model \| MGI Sequence Detail	74150	C57BL/6J	± kb
transcript	ENSMUST00000238863	Ensembl \| MGI Sequence Detail	3744	Not Applicable
polypeptide	ENSMUSP00000158933	Ensembl \| MGI Sequence Detail	1172	Not Applicable

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UniProt

4 Sequences
Protein Ontology

PR:000031485 PR domain-containing protein 11

(term hierarchy)
EC

2.1.1.-
InterPro Domains

IPR052870 Myb-related transcriptional repressor

IPR028002 Myb/SANT-like DNA-binding domain 5

IPR044405 PRDM11, PR/SET domain

IPR001005 SANT/Myb domain

IPR001214 SET domain

IPR046341 SET domain superfamily

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All nucleic 4

cDNA 3

Primer pair 1

Microarray probesets 1

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MGI:3035500

Summaries

All 30

Developmental Gene Expression 2

Gene Ontology 5

Phenotypes 11
Earliest

J:109968 Roderick TH, et al., Nineteen paracentric chromosomal inversions in mice. Genetics. 1974 Jan;76(1):109-17
Latest

J:318371 Ye A, et al., PEG3 binds to H19-ICR as a transcriptional repressor. Epigenetics. 2016 Dec;11(12):889-900

TSS for Prdm11:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr25278	Chr2:92876775-92876810 (-)	-281 bp
Tssr25277	Chr2:92876607-92876643 (-)	-113 bp
Tssr25276	Chr2:92876485-92876517 (-)	11 bp
Tssr25275	Chr2:92867581-92867604 (-)	8,919 bp
Tssr25274	Chr2:92844946-92844981 (-)	31,548 bp
Tssr25273	Chr2:92844918-92844943 (-)	31,581 bp
Tssr25272	Chr2:92808474-92808477 (-)	68,036 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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