Pcif1 MGI Mouse Gene Detail - MGI:2443858 - phosphorylated CTD interacting factor 1

Symbol

Pcif1
Name

phosphorylated CTD interacting factor 1
Synonyms

2310022K11Rik, F730014I05Rik

Feature Type

protein coding gene
IDs

MGI:2443858
NCBI Gene: 228866
Alliance

gene page
Transcription Start Sites

3 TSS

Sequence Map

Chr2:164721288-164733360 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 2, 85.27 cM
Mapping Data

1 experiment

SNPs within 2kb

309 from dbSNP Build 142
Strain Annotations

17

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2443858	protein coding gene	Chr2:164721224-164736374 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0026881	protein coding gene	Chr2:170391037-170407478 (+)
A/J	MGP_AJ_G0026848	protein coding gene	Chr2:163417792-163432959 (+)
AKR/J	MGP_AKRJ_G0026819	protein coding gene	Chr2:168297537-168312641 (+)
BALB/cJ	MGP_BALBcJ_G0026857	protein coding gene	Chr2:163785121-163800010 (+)
C3H/HeJ	MGP_C3HHeJ_G0026599	protein coding gene	Chr2:168644123-168660146 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0027304	protein coding gene	Chr2:175330740-175346828 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0024675	protein coding gene	Chr2:156825566-156840431 (+)
CAST/EiJ	MGP_CASTEiJ_G0026057	protein coding gene	Chr2:169057257-169074061 (+)
CBA/J	MGP_CBAJ_G0026576	protein coding gene	Chr2:181694200-181711568 (+)
DBA/2J	MGP_DBA2J_G0026714	protein coding gene	Chr2:162583569-162599745 (+)
FVB/NJ	MGP_FVBNJ_G0026680	protein coding gene	Chr2:161006193-161021583 (+)
LP/J	MGP_LPJ_G0026816	protein coding gene	Chr2:170447147-170462148 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0026699	protein coding gene	Chr2:185238153-185253100 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0027361	protein coding gene	Chr2:168181928-168196796 (+)
PWK/PhJ	no annotation
SPRET/EiJ	MGP_SPRETEiJ_G0025595	protein coding gene	Chr2:167086163-167102273 (+)
WSB/EiJ	MGP_WSBEiJ_G0026130	protein coding gene	Chr2:169062918-169079302 (+)

Human Ortholog

PCIF1, phosphorylated CTD interacting factor 1

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

PCIF1, phosphorylated CTD interacting factor 1
Synonyms

C20orf67, CAPAM, hCAPAM, hPCIF1, MT-A70, PPP1R121
Links

HGNC:16200

NCBI Gene ID: 63935

neXtProt AC: NX_Q9H4Z3

UniProt: Q9H4Z3
Chr Location

20q13.12; chr20:45934683-45948023 (+) GRCh38

MGI Vertebrate Homology

Pcif1 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: PCIF1
Gene Tree

Pcif1

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Phenotype Summary

12 phenotypes from 3 alleles in 2 genetic backgrounds
16 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

70
Endonuclease-mediated

6
Gene trapped

61
Targeted

3
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

44 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a null allele exhibit reduced body weight.

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All GO Annotations

25
GO References

6

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

706
cDNA Data

111

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase pcif1

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All Sequences

52
RefSeq

8
UniProt

4
CCDS

CCDS17064.1

Ensembl

ENSMUSG00000039849 (Evidence)
NCBI Gene

228866

			Length	Strain/Species	Flank
genomic	228866	NCBI Gene Model \| MGI Sequence Detail	12073	C57BL/6J	± kb
transcript	NM_001374126	RefSeq \| MGI Sequence Detail	3887	C57BL/6
polypeptide	P59114	UniProt \| EBI \| MGI Sequence Detail	706	Not Applicable

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UniProt

4 Sequences
Protein Ontology

PR:000012415 mRNA (2'-O-methyladenosine-N(6)-)-methyltransferase

(term hierarchy)
EC

2.1.1.62
InterPro Domains

IPR029048 Heat shock protein 70kD, C-terminal domain superfamily

IPR039881 mRNA (2'-O-methyladenosine-N(6)-)-methyltransferase PCIF1-like

IPR022035 PCIF1, WW domain

IPR001202 WW domain

IPR036020 WW domain superfamily

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All nucleic 111

cDNA 111

Microarray probesets 5

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MGI:1917532

Summaries

All 44

Gene Ontology 6

Phenotypes 16
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 Pcif1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr21683	Chr2:164721278-164721318 (+)	10 bp
Tssr21684	Chr2:164721936-164721959 (+)	660 bp
Tssr21685	Chr2:164721965-164721981 (+)	685 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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