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Zkscan5 zinc finger with KRAB and SCAN domains 5 [ Mus musculus (house mouse) ]

Gene ID: 22757, updated on 11-Apr-2024

Summary

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Official Symbol
Zkscan5provided by MGI
Official Full Name
zinc finger with KRAB and SCAN domains 5provided by MGI
Primary source
MGI:MGI:107533
See related
Ensembl:ENSMUSG00000055991 AllianceGenome:MGI:107533
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
Zfp95; hKraba1
Summary
Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Is expressed in several structures, including ear; early embryo; genitourinary system; and nervous system. Orthologous to human ZKSCAN5 (zinc finger with KRAB and SCAN domains 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 3.5), testis adult (RPKM 3.4) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
5 G2; 5 85.14 cM
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (145141349..145158562)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (145204559..145221752)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene ATP synthase membrane subunit f Neighboring gene zinc finger with KRAB and SCAN domains 14 Neighboring gene STARR-positive B cell enhancer ABC_E1316 Neighboring gene STARR-positive B cell enhancer ABC_E533 Neighboring gene STARR-positive B cell enhancer ABC_E4805 Neighboring gene zinc finger protein 655 Neighboring gene predicted gene 9710

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
  • 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. Three novel spermatogenesis-specific zinc finger genes. Weissig H, et al. FEBS Lett, 2003 Jul 17. PMID 12860387
  2. Comparative analysis of a conserved zinc finger gene cluster on human chromosome 19q and mouse chromosome 7. Shannon M, et al. Genomics, 1996 Apr 1. PMID 8617494
  3. Constraint and divergence of global gene expression in the mammalian embryo. Spies N, et al. Elife, 2015 Apr 14. PMID 25871848, Free PMC Article
  4. Deterministic and stochastic allele specific gene expression in single mouse blastomeres. Tang F, et al. PLoS One, 2011. PMID 21731673, Free PMC Article
  5. Prediction of the coding sequences of mouse homologues of KIAA gene: IV. The complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2004 Jun 30. PMID 15368895

See all (23) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. cloning and characterization of its expression during spermatogenesis
    Title: Three novel spermatogenesis-specific zinc finger genes.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
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 metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
zinc finger protein with KRAB and SCAN domains 5
Names
zfp-95
zinc finger protein 95

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_001167944.2 → NP_001161416.1  zinc finger protein with KRAB and SCAN domains 5 isoform 2

    See identical proteins and their annotated locations for NP_001161416.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two coding exons compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AC127411
    Consensus CDS
    CCDS51697.1
    UniProtKB/TrEMBL
    Q6PAK4
    Related
    ENSMUSP00000031601.8, ENSMUST00000031601.8
    Conserved Domains (6) summary
    smart00431
    Location:47 → 155
    SCAN; leucine rich region
    COG5048
    Location:250 → 671
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:469 → 489
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:467 → 489
    zf-C2H2; Zinc finger, C2H2 type
    pfam02023
    Location:47 → 134
    SCAN; SCAN domain
    pfam13465
    Location:310 → 333
    zf-H2C2_2; Zinc-finger double domain

  2. NM_001359187.2 → NP_001346116.1  zinc finger protein with KRAB and SCAN domains 5 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (3) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AC127411
    Conserved Domains (5) summary
    smart00431
    Location:47 → 155
    SCAN; leucine rich region
    COG5048
    Location:308 → 729
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:527 → 547
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam13465
    Location:763 → 787
    zf-H2C2_2; Zinc-finger double domain
    cl02581
    Location:220 → 240
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box

  3. NM_001359188.2 → NP_001346117.1  zinc finger protein with KRAB and SCAN domains 5 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) contains an alternate splice junction in the 5' end compared to variant 1. The resulting isoform (4) is shorter at the N-terminus compared to isoform 1.
    Source sequence(s)
    AC127411
    Conserved Domains (4) summary
    cd07765
    Location:71 → 105
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    COG5048
    Location:174 → 595
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:393 → 413
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam13465
    Location:629 → 653
    zf-H2C2_2; Zinc-finger double domain

  4. NM_001359189.2 → NP_001346118.1  zinc finger protein with KRAB and SCAN domains 5 isoform 5

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) contains two alternate splice junctions compared to variant 1. The resulting isoform (5) has a shorter and distinct N-terminus compared to isoform 1.
    Source sequence(s)
    AC127411
    Conserved Domains (3) summary
    cd07765
    Location:33 → 67
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    COG5048
    Location:136 → 557
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:355 → 375
    ZF_C2H2; C2H2 Zn finger [structural motif]

  5. NM_001359190.2 → NP_001346119.1  zinc finger protein with KRAB and SCAN domains 5 isoform 6

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) contains an alternate splice junction in the 5' end and lacks two coding exons compared to variant 1. The resulting isoform (6) is shorter at the N-terminus and lacks an alternate internal segment compared to isoform 1.
    Source sequence(s)
    AC127411
    Conserved Domains (3) summary
    COG5048
    Location:101 → 522
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:320 → 340
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam13465
    Location:556 → 580
    zf-H2C2_2; Zinc-finger double domain

  6. NM_001359191.2 → NP_001346120.1  zinc finger protein with KRAB and SCAN domains 5 isoform 7

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) uses an alternate splice junction in the 3' end compared to variant 1, that causes a frameshift. The resulting isoform (7) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AC127411
    Conserved Domains (5) summary
    smart00431
    Location:47 → 155
    SCAN; leucine rich region
    cd07765
    Location:220 → 254
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    sd00017
    Location:343 → 363
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:341 → 363
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:355 → 380
    zf-H2C2_2; Zinc-finger double domain

  7. NM_001359192.2 → NP_001346121.1  zinc finger protein with KRAB and SCAN domains 5 isoform 8

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8) lacks two coding exons and uses an alternate splice junction in the 3' end compared to variant 1, that causes a frameshift. The resulting isoform (8) has a shorter and distinct C-terminus and lacks an alternate internal segment compared to isoform 1.
    Source sequence(s)
    AC127411
    Conserved Domains (4) summary
    smart00431
    Location:47 → 155
    SCAN; leucine rich region
    sd00017
    Location:270 → 290
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:268 → 290
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:282 → 307
    zf-H2C2_2; Zinc-finger double domain

  8. NM_001425461.1 → NP_001412390.1  zinc finger protein with KRAB and SCAN domains 5 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC127411

  9. NM_016683.3 → NP_057892.2  zinc finger protein with KRAB and SCAN domains 5 isoform 1

    See identical proteins and their annotated locations for NP_057892.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AC127411
    Consensus CDS
    CCDS39386.1
    UniProtKB/Swiss-Prot
    E9QLY2, Q9Z1D8
    Related
    ENSMUSP00000082814.4, ENSMUST00000085671.10
    Conserved Domains (7) summary
    smart00431
    Location:47 → 155
    SCAN; leucine rich region
    COG5048
    Location:323 → 744
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:542 → 562
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:540 → 562
    zf-C2H2; Zinc finger, C2H2 type
    pfam01352
    Location:220 → 251
    KRAB; KRAB box
    pfam02023
    Location:47 → 134
    SCAN; SCAN domain
    pfam13465
    Location:383 → 406
    zf-H2C2_2; Zinc-finger double domain

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
    145141349..145158562
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006504822.2 → XP_006504885.1  zinc finger protein with KRAB and SCAN domains 5 isoform X2

    See identical proteins and their annotated locations for XP_006504885.1

    Conserved Domains (3) summary
    COG5048
    Location:20 → 441
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:239 → 259
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam13465
    Location:475 → 499
    zf-H2C2_2; Zinc-finger double domain

  2. XM_011241010.1 → XP_011239312.1  zinc finger protein with KRAB and SCAN domains 5 isoform X2

    See identical proteins and their annotated locations for XP_011239312.1

    Conserved Domains (3) summary
    COG5048
    Location:20 → 441
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:239 → 259
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam13465
    Location:475 → 499
    zf-H2C2_2; Zinc-finger double domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9Z1D8.2 GenPept UniProtKB/Swiss-Prot:Q9Z1D8

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