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Zscan21 zinc finger and SCAN domain containing 21 [ Mus musculus (house mouse) ]

Gene ID: 22697, updated on 28-Oct-2024

Summary

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Official Symbol
Zscan21provided by MGI
Official Full Name
zinc finger and SCAN domain containing 21provided by MGI
Primary source
MGI:MGI:99182
See related
Ensembl:ENSMUSG00000037017 AllianceGenome:MGI:99182
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
RU49; Zfp38; Zfp-38; Zipro1; CTfin51
Summary
Enables DNA binding activity. Involved in male meiosis I and spermatogenesis. Acts upstream of or within positive regulation of DNA-templated transcription. Located in nucleus. Is expressed in several structures, including early conceptus; genitourinary system; gut gland; liver and biliary system; and nervous system. Orthologous to human ZSCAN21 (zinc finger and SCAN domain containing 21). [provided by Alliance of Genome Resources, Oct 2024]
Expression
Broad expression in CNS E11.5 (RPKM 21.4), CNS E14 (RPKM 21.2) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Zscan21 in Genome Data Viewer
Location:
5 G2; 5 76.96 cM
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (138115161..138132527)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (138116899..138134265)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene sperm motility kinase 3C Neighboring gene zinc finger with KRAB and SCAN domains 1 Neighboring gene STARR-positive B cell enhancer ABC_E8086 Neighboring gene zinc finger protein 113 Neighboring gene STARR-positive B cell enhancer ABC_E4799 Neighboring gene STARR-positive B cell enhancer ABC_E9656 Neighboring gene COP9 signalosome subunit 6

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data 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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Related articles in PubMed

  1. Transcription factor ZFP38 is essential for meiosis prophase I in male mice. Yan Z, et al. Reproduction, 2016 Nov. PMID 27492080
  2. BAC-mediated gene-dosage analysis reveals a role for Zipro1 (Ru49/Zfp38) in progenitor cell proliferation in cerebellum and skin. Yang XW, et al. Nat Genet, 1999 Aug. PMID 10431235
  3. Gene dosage in mice--BAC to the future. Magdaleno SM, et al. Nat Genet, 1999 Aug. PMID 10431229
  4. Granule cell specification in the developing mouse brain as defined by expression of the zinc finger transcription factor RU49. Yang XW, et al. Development, 1996 Feb. PMID 8625807
  5. The ubiquitous transactivator Zfp-38 is upregulated during spermatogenesis with differential transcription. Chowdhury K, et al. Mech Dev, 1992 Dec. PMID 1284028

See all (42) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (3) 
  • Gene trapped (1) 
  • Targeted (4)  1 citation

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA-binding transcription activator activity, RNA polymerase II-specific IEA
Inferred from Electronic Annotation
more info
  
enables DNA-binding transcription activator activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
  
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in male meiosis I IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in oogenesis IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within positive regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in spermatogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
zinc finger and SCAN domain-containing protein 21
Names
transcription factor RU49
zinc finger proliferation 1
zinc finger protein 38

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)

  1. NM_001044703.2 → NP_001038168.1  zinc finger and SCAN domain-containing protein 21

    See identical proteins and their annotated locations for NP_001038168.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1,2,3 and 4 encode the same protein.
    Source sequence(s)
    AI326272, AK146875, BY293243, BY309906, BY654936, DV651309
    Consensus CDS
    CCDS19790.1
    UniProtKB/Swiss-Prot
    Q07231, Q921V2
    Related
    ENSMUSP00000106585.3, ENSMUST00000110960.9
    Conserved Domains (4) summary
    smart00431
    Location:118 → 230
    SCAN; leucine rich region
    COG5048
    Location:339 → 535
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:472 → 492
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:528 → 548
    zf-C2H2; Zinc finger, C2H2 type

  2. NM_001044704.2 → NP_001038169.1  zinc finger and SCAN domain-containing protein 21

    See identical proteins and their annotated locations for NP_001038169.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1,2,3 and 4 encode the same protein.
    Source sequence(s)
    AI326272, AK146776, AK146875, BY293243, BY654936, CF915830, DV651309
    Consensus CDS
    CCDS19790.1
    UniProtKB/Swiss-Prot
    Q07231, Q921V2
    Related
    ENSMUSP00000053430.9, ENSMUST00000062350.15
    Conserved Domains (4) summary
    smart00431
    Location:118 → 230
    SCAN; leucine rich region
    COG5048
    Location:339 → 535
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:472 → 492
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:528 → 548
    zf-C2H2; Zinc finger, C2H2 type

  3. NM_001044705.2 → NP_001038170.1  zinc finger and SCAN domain-containing protein 21

    See identical proteins and their annotated locations for NP_001038170.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. Variants 1,2,3 and 4 encode the same protein.
    Source sequence(s)
    AI326272, AK146875, BY293243, BY309906, BY654936, DV651309
    Consensus CDS
    CCDS19790.1
    UniProtKB/Swiss-Prot
    Q07231, Q921V2
    Related
    ENSMUSP00000079557.4, ENSMUST00000080732.10
    Conserved Domains (4) summary
    smart00431
    Location:118 → 230
    SCAN; leucine rich region
    COG5048
    Location:339 → 535
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:472 → 492
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:528 → 548
    zf-C2H2; Zinc finger, C2H2 type

  4. NM_011757.3 → NP_035887.2  zinc finger and SCAN domain-containing protein 21

    See identical proteins and their annotated locations for NP_035887.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1,2,3 and 4 encode the same protein.
    Source sequence(s)
    AI326272, AK146875, BY293243, BY654936, DV651309
    Consensus CDS
    CCDS19790.1
    UniProtKB/Swiss-Prot
    Q07231, Q921V2
    Related
    ENSMUSP00000106586.3, ENSMUST00000110961.9
    Conserved Domains (4) summary
    smart00431
    Location:118 → 230
    SCAN; leucine rich region
    COG5048
    Location:339 → 535
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:472 → 492
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:528 → 548
    zf-C2H2; Zinc finger, C2H2 type

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

  1. NC_000071.7 Reference GRCm39 C57BL/6J

    Range
    138115161..138132527
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011240942.1 → XP_011239244.1  zinc finger and SCAN domain-containing protein 21 isoform X1

    See identical proteins and their annotated locations for XP_011239244.1

    UniProtKB/Swiss-Prot
    Q07231, Q921V2
    Conserved Domains (4) summary
    smart00431
    Location:118 → 230
    SCAN; leucine rich region
    COG5048
    Location:339 → 535
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:472 → 492
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:528 → 548
    zf-C2H2; Zinc finger, C2H2 type
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q07231.2 GenPept UniProtKB/Swiss-Prot:Q07231

Gene LinkOut

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