Zc3h13 MGI Mouse Gene Detail - MGI:1914552 - zinc finger CCCH type containing 13

Symbol

Zc3h13
Name

zinc finger CCCH type containing 13
Synonyms

2600010B19Rik, 3110050K21Rik, 4930570G11Rik, C87618

Feature Type

protein coding gene
IDs

MGI:1914552
NCBI Gene: 67302
Alliance

genome feature page
Transcription Start Sites

10 TSS

Sequence Map

Chr14:75521813-75581866 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 14, 39.80 cM, cytoband D2
Mapping Data

3 experiments

SNPs within 2kb

1307 from dbSNP Build 142
Strain Annotations

19

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1914552	protein coding gene	Chr14:75521746-75581873 (+)
129S1/SvImJ	ENSMUSG00200010044	protein coding gene	Chr14:63946118-64006570 (+)
A/J	ENSMUSG00195003905	protein coding gene	Chr14:64098456-64159050 (+)
AKR/J	ENSMUSG00220007303	protein coding gene	Chr14:63486023-63546612 (+)
BALB/cJ	ENSMUSG00180021235	protein coding gene	Chr14:63690490-63751081 (+)
C3H/HeJ	ENSMUSG00175029252	protein coding gene	Chr14:65507234-65567822 (+)
C57BL/6NJ	ENSMUSG00215017783	protein coding gene	Chr14:63685777-63746363 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0019512	protein coding gene	Chr14:66180040-66240627 (+)
CAST/EiJ	ENSTCUG00005030068	protein coding gene	Chr14:65336410-65397307 (+)
CBA/J	ENSMUSG00210010120	protein coding gene	Chr14:64121892-64182474 (+)
DBA/2J	ENSMUSG00185021759	protein coding gene	Chr14:69266460-69327048 (+)
FVB/NJ	ENSMUSG00205018327	protein coding gene	Chr14:63514029-63574619 (+)
JF1/MsJ	ENSUMUG00000025242	protein coding gene	Chr14:80429781-80490477 (+)
LP/J	ENSMUSG00230014857	protein coding gene	Chr14:81296163-81356613 (+)
NOD/ShiLtJ	ENSMUSG00190010561	protein coding gene	Chr14:63897257-63957854 (+)
NZO/HlLtJ	ENSMUSG00225024957	protein coding gene	Chr14:71617603-71678248 (+)
PWK/PhJ	ENSLUMG00010010905	protein coding gene	Chr14:63294958-63355661 (+)
SPRET/EiJ	ENSMSPG00010025004	protein coding gene	Chr14:66924720-66985714 (+)
WSB/EiJ	ENSIUOG00005022450	protein coding gene	Chr14:63268109-63328679 (+)

Human Ortholog

ZC3H13, zinc finger CCCH-type containing 13

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

ZC3H13, zinc finger CCCH-type containing 13
Synonyms

KIAA0853, Xio
Links

HGNC:20368

NCBI Gene ID: 23091

UniProt: Q5T200
Chr Location

13q14.13; chr13:45954364-46052781 (-) GRCh38

MGI Vertebrate Homology

Zc3h13 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: ZC3H13
Gene Tree

Zc3h13

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Phenotype Summary

11 phenotypes from 1 allele in 1 genetic background
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

19
Chemically induced (other)

1
Endonuclease-mediated

4
Gene trapped

12
Targeted

2
Genomic Mutations

1 involving Zc3h13
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

65 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

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All GO Annotations

16
GO References

7

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

619
Tissues

9
cDNA Data

78
Literature Summary

2

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

GEO

Expression Atlas
Other Vertebrate Links

GEISHA ZC3H13

Xenbase zc3h13

ZFIN zc3h13

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All Sequences

68
RefSeq

14
UniProt

6
CCDS

CCDS27278.1, CCDS88715.1

Ensembl

ENSMUSG00000022000 (Evidence)
NCBI Gene

67302

			Length	Strain/Species	Flank
genomic	ENSMUSG00000022000	Ensembl Gene Model \| MGI Sequence Detail	60054	C57BL/6J	± kb
transcript	ENSMUST00000227049	Ensembl \| MGI Sequence Detail	6144	Not Applicable
polypeptide	ENSMUSP00000153882	Ensembl \| MGI Sequence Detail	1730	Not Applicable

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UniProt

6 Sequences
Protein Ontology

PR:000030570 zinc finger CCCH domain-containing protein 13

(term hierarchy)
InterPro Domains

IPR040427 Fl(2)d-associated complex component

IPR052824 Zinc finger CCCH domain-containing protein 13

IPR000571 Zinc finger, CCCH-type

IPR036855 Zinc finger, CCCH-type superfamily
GlyGen

E9Q784 2 sites

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All nucleic 80

cDNA 78

Primer pair 2

Antibodies 1

Microarray probesets 5

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MGI:1917552, MGI:1923145, MGI:2145879

Summaries

All 50

Developmental Gene Expression 2

Gene Ontology 7

Phenotypes 16
Earliest

J:60984 Ko MS, et al., Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Development. 2000 Apr;127(8):1737-49
Latest

J:368729 Wu M, et al., VIRMA-mediated m(6)A modification regulates forebrain formation through modulating ribosome biogenesis. Sci Adv. 2025 Jun 27;11(26):eadq9643

TSS for Zc3h13:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr126670	Chr14:75521754-75521765 (+)	-53 bp
Tssr126671	Chr14:75521767-75521776 (+)	-41 bp
Tssr126672	Chr14:75521783-75521830 (+)	-6 bp
Tssr126673	Chr14:75521836-75521847 (+)	29 bp
Tssr126674	Chr14:75553403-75553408 (+)	31,593 bp
Tssr126675	Chr14:75561286-75561291 (+)	39,476 bp
Tssr126676	Chr14:75564809-75564823 (+)	43,003 bp
Tssr126677	Chr14:75567861-75567879 (+)	46,057 bp
Tssr126678	Chr14:75568397-75568418 (+)	46,595 bp
Tssr126679	Chr14:75569215-75569233 (+)	47,411 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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