Spocd1 SPOC domain containing 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Spocd1provided by MGI
Official Full Name: SPOC domain containing 1provided by MGI
Primary source: MGI:MGI:3652045
See related: Ensembl:ENSMUSG00000028784 AllianceGenome:MGI:3652045
Gene type: protein coding
RefSeq status: MODEL
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Summary: Involved in DNA methylation; negative regulation of transposition; and spermatogenesis. Located in nucleus. Orthologous to human SPOCD1 (SPOC domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in testis adult (RPKM 2.7), ovary adult (RPKM 1.5) and 2 other tissues See more
Orthologs: human all
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Genomic context

Location:: 4 D2.2; 4 63.43 cM

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	4	NC_000070.7 (129822560..129850908)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	4	NC_000070.6 (129928767..129957115)

Chromosome 4 - NC_000070.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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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?

SPOCD1 is an essential executor of piRNA-directed de novo DNA methylation.
Title: SPOCD1 is an essential executor of piRNA-directed de novo DNA methylation.

Submit: New GeneRIF Correction

Variation

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Alleles

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

Endonuclease-mediated (4) 1 citation

General gene information

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Markers

D4Wehi3 (e-PCR)
- UniSTS:531278

D4Wehi4 (e-PCR)
- UniSTS:531279

D4Wehi5 (e-PCR)
- UniSTS:531280

Homology

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in piRNA-mediated retrotransposon silencing by heterochromatin formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulatory ncRNA-mediated gene silencing	IEA Inferred from Electronic Annotation more info
involved_in spermatogenesis	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in chromosome	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: SPOC domain-containing protein 1

NCBI Reference Sequences (RefSeq)

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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_000070.7 Reference GRCm39 C57BL/6J

Range

129822560..129850908

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017320505.1 → XP_017175994.1 SPOC domain-containing protein 1

UniProtKB/Swiss-Prot

B1ASB6

UniProtKB/TrEMBL

A0A7N9T6T7

Related

ENSMUSP00000081284.6, ENSMUST00000084263.6

Conserved Domains (2) summary

pfam07500
Location:410 → 520

TFIIS_M; Transcription factor S-II (TFIIS), central domain

pfam07744
Location:681 → 825

SPOC; SPOC domain

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001144949.1: Suppressed sequence

Description

NM_001144949.1: This RefSeq was suppressed temporarily based on the calculation that the encoded protein was shorter than proteins from the putative ortholog from human: SPOCD1 (GeneID:90853).