Zc3h13 zinc finger CCCH type containing 13 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Zc3h13provided by MGI
Official Full Name: zinc finger CCCH type containing 13provided by MGI
Primary source: MGI:MGI:1914552
See related: Ensembl:ENSMUSG00000022000 AllianceGenome:MGI:1914552
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: 2600010B19Rik; 3110050K21Rik; 4930570G11Rik
Summary: Predicted to enable metal ion binding activity. Involved in mRNA methylation and regulation of stem cell population maintenance. Located in nuclear speck. Part of RNA N6-methyladenosine methyltransferase complex. Is expressed in early conceptus; inner cell mass; and oocyte. Orthologous to human ZC3H13 (zinc finger CCCH-type containing 13). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in CNS E11.5 (RPKM 8.3), frontal lobe adult (RPKM 5.8) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 14 D3; 14 39.8 cM

Exon count:: 21

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	14	NC_000080.7 (75521746..75581873)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	14	NC_000080.6 (75284306..75344433)

Chromosome 14 - NC_000080.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Zc3h13 plays a critical role in anchoring WTAP, Virilizer, and Hakai in the nucleus to facilitate m(6)A methylation and to regulate murine embryonic stem cell self-renewal.
Title: Zc3h13 Regulates Nuclear RNA m(6)A Methylation and Mouse Embryonic Stem Cell Self-Renewal.
identified Zc3h13 (zinc finger CCCH domain-containing protein 13)/Flacc [Fl(2)d-associated complex component] as a novel interactor of m(6)A methyltransferase complex components in Drosophila and mice
Title: Zc3h13/Flacc is required for adenosine methylation by bridging the mRNA-binding factor Rbm15/Spenito to the m(6)A machinery component Wtap/Fl(2)d.

Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (4)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

C87618 (e-PCR)
- UniSTS:165916

34.MMHAP18FRD10.seq (e-PCR)
- UniSTS:124075

AI255929 (e-PCR)
- UniSTS:180700

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within RNA splicing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mRNA processing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within multicellular organism development	IEA Inferred from Electronic Annotation more info
involved_in regulation of stem cell population maintenance	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of RNA N6-methyladenosine methyltransferase complex	IDA Inferred from Direct Assay more info	PubMed
part_of RNA N6-methyladenosine methyltransferase complex	ISO Inferred from Sequence Orthology more info
is_active_in nuclear speck	IBA Inferred from Biological aspect of Ancestor more info
located_in nuclear speck	IDA Inferred from Direct Assay more info	PubMed
located_in nuclear speck	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	NAS Non-traceable Author Statement more info	PubMed

General protein information

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Preferred Names: zinc finger CCCH domain-containing protein 13

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001359875.1 → NP_001346804.1 zinc finger CCCH domain-containing protein 13 isoform 1

Status: VALIDATED

Source sequence(s)

AW536655, BC082576, BC138264, BY127373

Consensus CDS

CCDS88715.1

UniProtKB/TrEMBL

A0A2I3BPQ5

Related

ENSMUSP00000153882.2, ENSMUST00000227049.2

Conserved Domains (1) summary

pfam00642
Location:42 → 62

zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
NM_026083.2 → NP_080359.2 zinc finger CCCH domain-containing protein 13 isoform 2

See identical proteins and their annotated locations for NP_080359.2

Status: VALIDATED

Source sequence(s)

AK078225, AW536655, BB619434, BC038882, BG062845, CAAA01056772, CF731340, CF742012

Consensus CDS

CCDS27278.1

UniProtKB/Swiss-Prot

B9EHN9, E9Q784

Related

ENSMUSP00000022577.6, ENSMUST00000022577.6

Conserved Domains (1) summary

pfam00642
Location:42 → 62

zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000080.7 Reference GRCm39 C57BL/6J

Range

75521746..75581873

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006519447.5 → XP_006519510.1 zinc finger CCCH domain-containing protein 13 isoform X3

See identical proteins and their annotated locations for XP_006519510.1

UniProtKB/Swiss-Prot

B9EHN9, E9Q784

Conserved Domains (1) summary

pfam00642
Location:42 → 62

zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
XM_030247971.2 → XP_030103831.1 zinc finger CCCH domain-containing protein 13 isoform X2

UniProtKB/TrEMBL

A0A2I3BPQ5

Conserved Domains (1) summary

pfam00642
Location:42 → 62

zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
XM_011245157.4 → XP_011243459.1 zinc finger CCCH domain-containing protein 13 isoform X4
XM_006519446.5 → XP_006519509.1 zinc finger CCCH domain-containing protein 13 isoform X2

See identical proteins and their annotated locations for XP_006519509.1

UniProtKB/TrEMBL

A0A2I3BPQ5

Conserved Domains (1) summary

pfam00642
Location:42 → 62

zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
XM_036158826.1 → XP_036014719.1 zinc finger CCCH domain-containing protein 13 isoform X1

Conserved Domains (1) summary

pfam00642
Location:42 → 63

zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_027377.1: Suppressed sequence

Description

NM_027377.1: This RefSeq was suppressed temporarily based on the calculation that the annotated protein was shorter than a protein or proteins from a putative ortholog.