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ZNF541 zinc finger protein 541 [ Homo sapiens (human) ]

Gene ID: 84215, updated on 5-Jan-2022

Summary

Official Symbol
ZNF541provided by HGNC
Official Full Name
zinc finger protein 541provided by HGNC
Primary source
HGNC:HGNC:25294
See related
Ensembl:ENSG00000118156
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
Predicted to enable transcription corepressor activity. Predicted to be involved in histone deacetylation; negative regulation of transcription, DNA-templated; and regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Predicted to be part of histone deacetylase complex and transcription regulator complex. [provided by Alliance of Genome Resources, Nov 2021]
Expression
Biased expression in testis (RPKM 7.8) and ovary (RPKM 0.4) See more
Orthologs
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Genomic context

See ZNF541 in Genome Data Viewer
Location:
19q13.33
Exon count:
20
Annotation release Status Assembly Chr Location
109.20211119 current GRCh38.p13 (GCF_000001405.39) 19 NC_000019.10 (47520685..47573248, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (48023947..48076405, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene NAPA antisense RNA 1 Neighboring gene kaptin, actin binding protein Neighboring gene NSF attachment protein alpha Neighboring gene RNA, 7SL, cytoplasmic 322, pseudogene Neighboring gene BRD4 interacting chromatin remodeling complex associated protein Neighboring gene Sharpr-MPRA regulatory region 9389

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC119518, MGC119519, MGC119521, DKFZp434I1930

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transcription corepressor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
involved_in cell differentiation IEA
Inferred from Electronic Annotation
more info
 
involved_in histone deacetylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in negative regulation of transcription, DNA-templated IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in spermatogenesis IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
part_of histone deacetylase complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of histone deacetylase complex ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 
part_of transcription regulator complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

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.

Genomic

  1. NG_054911.1 RefSeqGene

    Range
    5091..57549
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001277075.3NP_001264004.1  zinc finger protein 541

    See identical proteins and their annotated locations for NP_001264004.1

    Status: VALIDATED

    Source sequence(s)
    AC010331, AL136846, DT932577, HY033195
    Consensus CDS
    CCDS46133.2
    UniProtKB/Swiss-Prot
    Q9H0D2
    Related
    ENSP00000375770.3, ENST00000391901.8
    Conserved Domains (7) summary
    smart00717
    Location:11651209
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    COG5048
    Location:150319
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:142162
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:142162
    zf-C2H2; Zinc finger, C2H2 type
    pfam01448
    Location:10551110
    ELM2; ELM2 domain
    pfam13465
    Location:154179
    zf-H2C2_2; Zinc-finger double domain
    cl21498
    Location:11651208
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20211119

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p13 Primary Assembly

    Range
    47520685..47573248 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011527369.2XP_011525671.1  zinc finger protein 541 isoform X1

    See identical proteins and their annotated locations for XP_011525671.1

    Conserved Domains (7) summary
    smart00717
    Location:11701214
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    COG5048
    Location:150324
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:142162
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:142162
    zf-C2H2; Zinc finger, C2H2 type
    pfam01448
    Location:10601115
    ELM2; ELM2 domain
    pfam13465
    Location:154179
    zf-H2C2_2; Zinc-finger double domain
    cl21498
    Location:11701213
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...
  2. XM_011527368.2XP_011525670.1  zinc finger protein 541 isoform X1

    See identical proteins and their annotated locations for XP_011525670.1

    Conserved Domains (7) summary
    smart00717
    Location:11701214
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    COG5048
    Location:150324
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:142162
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:142162
    zf-C2H2; Zinc finger, C2H2 type
    pfam01448
    Location:10601115
    ELM2; ELM2 domain
    pfam13465
    Location:154179
    zf-H2C2_2; Zinc-finger double domain
    cl21498
    Location:11701213
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...
  3. XM_017027351.2XP_016882840.1  zinc finger protein 541 isoform X3

  4. XM_011527373.3XP_011525675.1  zinc finger protein 541 isoform X5

    Conserved Domains (7) summary
    smart00717
    Location:11121156
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    COG5048
    Location:150324
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:142162
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:142162
    zf-C2H2; Zinc finger, C2H2 type
    pfam01448
    Location:10021057
    ELM2; ELM2 domain
    pfam13465
    Location:154179
    zf-H2C2_2; Zinc-finger double domain
    cl21498
    Location:11121155
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...
  5. XM_011527372.3XP_011525674.1  zinc finger protein 541 isoform X4

    Conserved Domains (6) summary
    COG5048
    Location:150324
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:142162
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:142162
    zf-C2H2; Zinc finger, C2H2 type
    pfam01448
    Location:10601115
    ELM2; ELM2 domain
    pfam13465
    Location:154179
    zf-H2C2_2; Zinc-finger double domain
    cl21498
    Location:11401158
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...
  6. XM_011527374.3XP_011525676.1  zinc finger protein 541 isoform X6

    Conserved Domains (7) summary
    smart00717
    Location:11081152
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    COG5048
    Location:88262
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:80100
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:80100
    zf-C2H2; Zinc finger, C2H2 type
    pfam01448
    Location:9981053
    ELM2; ELM2 domain
    pfam13465
    Location:92117
    zf-H2C2_2; Zinc-finger double domain
    cl21498
    Location:11081151
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...
  7. XM_005259311.5XP_005259368.1  zinc finger protein 541 isoform X2

    See identical proteins and their annotated locations for XP_005259368.1

    UniProtKB/Swiss-Prot
    Q9H0D2
    Conserved Domains (7) summary
    smart00717
    Location:11651209
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    COG5048
    Location:150319
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:142162
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:142162
    zf-C2H2; Zinc finger, C2H2 type
    pfam01448
    Location:10551110
    ELM2; ELM2 domain
    pfam13465
    Location:154179
    zf-H2C2_2; Zinc-finger double domain
    cl21498
    Location:11651208
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...
  8. XM_005259314.4XP_005259371.1  zinc finger protein 541 isoform X8

    Conserved Domains (6) summary
    smart00717
    Location:527571
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    sd00017
    Location:142162
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:142162
    zf-C2H2; Zinc finger, C2H2 type
    pfam01448
    Location:417472
    ELM2; ELM2 domain
    pfam13465
    Location:154179
    zf-H2C2_2; Zinc-finger double domain
    cl21498
    Location:527570
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...
  9. XM_011527371.2XP_011525673.1  zinc finger protein 541 isoform X1

    See identical proteins and their annotated locations for XP_011525673.1

    Conserved Domains (7) summary
    smart00717
    Location:11701214
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    COG5048
    Location:150324
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:142162
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:142162
    zf-C2H2; Zinc finger, C2H2 type
    pfam01448
    Location:10601115
    ELM2; ELM2 domain
    pfam13465
    Location:154179
    zf-H2C2_2; Zinc-finger double domain
    cl21498
    Location:11701213
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...
  10. XM_011527370.2XP_011525672.1  zinc finger protein 541 isoform X1

    See identical proteins and their annotated locations for XP_011525672.1

    Conserved Domains (7) summary
    smart00717
    Location:11701214
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    COG5048
    Location:150324
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:142162
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:142162
    zf-C2H2; Zinc finger, C2H2 type
    pfam01448
    Location:10601115
    ELM2; ELM2 domain
    pfam13465
    Location:154179
    zf-H2C2_2; Zinc-finger double domain
    cl21498
    Location:11701213
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...
  11. XM_011527375.2XP_011525677.1  zinc finger protein 541 isoform X7

    Conserved Domains (4) summary
    COG5048
    Location:150324
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:142162
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:142162
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:154179
    zf-H2C2_2; Zinc-finger double domain

RNA

  1. XR_935865.3 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001101419.1: Suppressed sequence

    Description
    NM_001101419.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
  2. NM_032255.1: Suppressed sequence

    Description
    NM_032255.1: This RefSeq was permanently suppressed because the CDS was partial.
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