Paf1 MGI Mouse Gene Detail - MGI:1923988 - Paf1, RNA polymerase II complex component

Symbol

Paf1
Name

Paf1, RNA polymerase II complex component
Synonyms

5730511K23Rik

Feature Type

protein coding gene
IDs

MGI:1923988
NCBI Gene: 54624
Alliance

gene page
Transcription Start Sites

2 TSS

Sequence Map

Chr7:28092376-28098813 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 7, 16.73 cM
Mapping Data

2 experiments

SNPs within 2kb

152 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1923988	protein coding gene	Chr7:28074998-28098813 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0031944	protein coding gene	Chr7:27176830-27184532 (+)
A/J	MGP_AJ_G0031923	protein coding gene	Chr7:26516767-26523711 (+)
AKR/J	MGP_AKRJ_G0031854	protein coding gene	Chr7:27192448-27199666 (+)
BALB/cJ	MGP_BALBcJ_G0031929	protein coding gene	Chr7:26675012-26681108 (+)
C3H/HeJ	MGP_C3HHeJ_G0031651	protein coding gene	Chr7:27572340-27579494 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0032394	protein coding gene	Chr7:28047655-28054084 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0029446	protein coding gene	Chr7:27590620-27596533 (+)
CAST/EiJ	MGP_CASTEiJ_G0030986	protein coding gene	Chr7:20876824-20883355 (+)
CBA/J	MGP_CBAJ_G0031614	protein coding gene	Chr7:29315962-29321982 (+)
DBA/2J	MGP_DBA2J_G0031767	protein coding gene	Chr7:26279506-26286096 (+)
FVB/NJ	MGP_FVBNJ_G0031724	protein coding gene	Chr7:26347659-26354789 (+)
LP/J	MGP_LPJ_G0031848	protein coding gene	Chr7:27500336-27508561 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0031759	protein coding gene	Chr7:28811723-28818948 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0032424	protein coding gene	Chr7:26678690-26686039 (+)
PWK/PhJ	MGP_PWKPhJ_G0030709	protein coding gene	Chr7:21281672-21288277 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0030544	protein coding gene	Chr7:17683935-17690096 (+)
WSB/EiJ	MGP_WSBEiJ_G0031093	protein coding gene	Chr7:27008258-27014716 (+)

Human Ortholog

PAF1, PAF1 homolog, Paf1/RNA polymerase II complex component

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

PAF1, PAF1 homolog, Paf1/RNA polymerase II complex component
Synonyms

F23149_1, PD2
Links

HGNC:25459

NCBI Gene ID: 54623

neXtProt AC: NX_Q8N7H5

UniProt: Q8N7H5
Chr Location

19q13.2; chr19:39385629-39391154 (-) GRCh38

MGI Vertebrate Homology

Paf1 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: PAF1
Gene Tree

Paf1

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Phenotype Summary

2 phenotypes from 1 allele in 1 genetic background
6 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

4
Endonuclease-mediated

3
Gene trapped

1
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

21 strains or lines available

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All GO Annotations

35
GO References

9

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

751
Tissues

43
cDNA Data

114
Literature Summary

4

Images

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase paf1

ZFIN paf1

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All Sequences

51
RefSeq

4
UniProt

1
CCDS

CCDS21043.1

Ensembl

ENSMUSG00000003437 (Evidence)
NCBI Gene

54624

			Length	Strain/Species	Flank
genomic	ENSMUSG00000003437	Ensembl Gene Model \| MGI Sequence Detail	6438	C57BL/6J	± kb
transcript	ENSMUST00000003529	Ensembl \| MGI Sequence Detail	2003	Not Applicable
polypeptide	ENSMUSP00000003529	Ensembl \| MGI Sequence Detail	535	Not Applicable

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UniProt

1 Sequence
Protein Ontology

PR:000012226 RNA polymerase II-associated factor 1

(term hierarchy)
InterPro Domains

IPR007133 RNA polymerase II associated factor Paf1
GlyGen

Q8K2T8 2 sites, 1 N-linked glycan (1 site), 1 O-linked glycan (1 site)

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All nucleic 115

cDNA 114

Primer pair 1

Microarray probesets 4

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MGI:2141848

Summaries

All 40

Developmental Gene Expression 4

Gene Ontology 9

Phenotypes 6
Earliest

J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
Latest

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

TSS for Paf1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr65471	Chr7:28092341-28092438 (+)	14 bp
Tssr65472	Chr7:28092462-28092467 (+)	89 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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