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DPF1 double PHD fingers 1 [ Homo sapiens (human) ]

Gene ID: 8193, updated on 6-Nov-2022

Summary

Official Symbol
DPF1provided by HGNC
Official Full Name
double PHD fingers 1provided by HGNC
Primary source
HGNC:HGNC:20225
See related
Ensembl:ENSG00000011332 MIM:601670; AllianceGenome:HGNC:20225
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
Also known as
NEUD4; BAF45b; SMARCG1; neuro-d4
Summary
Enables sequence-specific double-stranded DNA binding activity. Predicted to be involved in negative regulation of transcription, DNA-templated; nervous system development; and positive regulation of transcription by RNA polymerase II. Predicted to be located in cytoplasm. Predicted to be part of nBAF complex. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in brain (RPKM 6.5) and testis (RPKM 0.6) See more
Orthologs
NEW
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Try the new Transcript table

Genomic context

See DPF1 in Genome Data Viewer
Location:
19q13.2
Exon count:
14
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (38211006..38229695, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (41013164..41031861, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (38701646..38720335, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene signal induced proliferation associated 1 like 3 Neighboring gene small nucleolar RNA, C/D box 152 Neighboring gene RNA, 7SL, cytoplasmic 663, pseudogene Neighboring gene protein phosphatase 1 regulatory inhibitor subunit 14A Neighboring gene serine peptidase inhibitor, Kunitz type 2

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC150428, MGC150429

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables histone binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables sequence-specific double-stranded DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables transcription coregulator activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in chromatin IC
Inferred by Curator
more info
PubMed 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
part_of nBAF complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of nBAF complex IC
Inferred by Curator
more info
PubMed 
part_of nBAF complex ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
zinc finger protein neuro-d4
Names
BRG1-associated factor 45B
D4, zinc and double PHD fingers family 1
neuro-d4 homolog

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001135155.3NP_001128627.2  zinc finger protein neuro-d4 isoform a

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) uses an alternate in-frame splice site in the 3' coding region, compared to variant 4. The encoded protein (isoform a) is shorter, compared to isoform d.
    Source sequence(s)
    AC011479, BC125153
    Consensus CDS
    CCDS46064.2
    UniProtKB/Swiss-Prot
    Q08AJ0
    UniProtKB/TrEMBL
    A0A804CCM0
    Related
    ENSP00000347716.5, ENST00000355526.10
    Conserved Domains (4) summary
    COG5189
    Location:185219
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    cd15530
    Location:327372
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15690
    Location:269326
    PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
    pfam14051
    Location:1278
    Requiem_N; N-terminal domain of DPF2/REQ
  2. NM_001135156.3NP_001128628.1  zinc finger protein neuro-d4 isoform c

    See identical proteins and their annotated locations for NP_001128628.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) has multiple coding region differences, including use of a downstream translation initiation codon, compared to variant 4. The encoded protein (isoform c) is shorter than isoform d.
    Source sequence(s)
    AC011479, AI885717, AK094632, AL538568, BC021191
    Consensus CDS
    CCDS46065.1
    UniProtKB/Swiss-Prot
    Q92782
    UniProtKB/TrEMBL
    Q6PJ73
    Related
    ENSP00000412098.1, ENST00000412732.5
    Conserved Domains (4) summary
    COG5189
    Location:130164
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    cd15530
    Location:272317
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15690
    Location:214271
    PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
    pfam14051
    Location:123
    Requiem_N; N-terminal domain of DPF2/REQ
  3. NM_001289978.2NP_001276907.2  zinc finger protein neuro-d4 isoform d

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) represents the longest transcript and encodes the longest isoform (d).
    Source sequence(s)
    AC011479, GQ358728
    Consensus CDS
    CCDS92608.1
    UniProtKB/TrEMBL
    C8C3P2
    Related
    ENSP00000483226.1, ENST00000614244.4
    Conserved Domains (4) summary
    COG5189
    Location:185219
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    cd15530
    Location:327382
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15690
    Location:269326
    PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
    pfam14051
    Location:1278
    Requiem_N; N-terminal domain of DPF2/REQ
  4. NM_001363579.1NP_001350508.1  zinc finger protein neuro-d4 isoform e

    Status: VALIDATED

    Source sequence(s)
    AC011479, AI885717, AK094632, AL529673, AL538568, BC021191, BG702835
    Consensus CDS
    CCDS86760.1
    UniProtKB/TrEMBL
    J3KQY6
    Related
    ENSP00000411569.1, ENST00000456296.5
    Conserved Domains (4) summary
    COG5189
    Location:186220
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    cd15530
    Location:328373
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15690
    Location:270327
    PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
    pfam14051
    Location:1379
    Requiem_N; N-terminal domain of DPF2/REQ
  5. NM_004647.4NP_004638.3  zinc finger protein neuro-d4 isoform b

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the coding region, compared to variant 4. The encoded protein (isoform b) is shorter, compared to isoform d.
    Source sequence(s)
    AC011479, U43843
    Consensus CDS
    CCDS33008.3
    UniProtKB/TrEMBL
    A0A804CYY4
    Related
    ENSP00000397354.3, ENST00000420980.8
    Conserved Domains (3) summary
    cd15530
    Location:283338
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15690
    Location:225282
    PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
    pfam14051
    Location:1278
    Requiem_N; N-terminal domain of DPF2/REQ

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    38211006..38229695 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005259292.6XP_005259349.1  zinc finger protein neuro-d4 isoform X11

    See identical proteins and their annotated locations for XP_005259349.1

    Conserved Domains (4) summary
    COG5189
    Location:184218
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    cd15530
    Location:309354
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15690
    Location:251308
    PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
    pfam14051
    Location:1379
    Requiem_N; N-terminal domain of DPF2/REQ
  2. XM_011527357.3XP_011525659.1  zinc finger protein neuro-d4 isoform X8

    See identical proteins and their annotated locations for XP_011525659.1

    Conserved Domains (4) summary
    COG5189
    Location:184218
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    cd15530
    Location:309364
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15690
    Location:251308
    PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
    pfam14051
    Location:1379
    Requiem_N; N-terminal domain of DPF2/REQ
  3. XM_024451731.2XP_024307499.1  zinc finger protein neuro-d4 isoform X4

    Conserved Domains (4) summary
    COG5189
    Location:184218
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    cd15530
    Location:326371
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15690
    Location:268325
    PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
    pfam14051
    Location:1379
    Requiem_N; N-terminal domain of DPF2/REQ
  4. XM_006723408.4XP_006723471.1  zinc finger protein neuro-d4 isoform X2

    Conserved Domains (4) summary
    COG5189
    Location:184218
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    cd15530
    Location:326381
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15690
    Location:268325
    PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
    pfam14051
    Location:1379
    Requiem_N; N-terminal domain of DPF2/REQ
  5. XM_047439493.1XP_047295449.1  zinc finger protein neuro-d4 isoform X9

  6. XM_047439492.1XP_047295448.1  zinc finger protein neuro-d4 isoform X6

  7. XM_006723407.3XP_006723470.1  zinc finger protein neuro-d4 isoform X1

    See identical proteins and their annotated locations for XP_006723470.1

    UniProtKB/TrEMBL
    E9PDV3
    Related
    ENSP00000390223.1, ENST00000416611.5
    Conserved Domains (4) summary
    COG5189
    Location:186220
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    cd15530
    Location:328383
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15690
    Location:270327
    PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
    pfam14051
    Location:1379
    Requiem_N; N-terminal domain of DPF2/REQ
  8. XM_047439491.1XP_047295447.1  zinc finger protein neuro-d4 isoform X5

  9. XM_047439490.1XP_047295446.1  zinc finger protein neuro-d4 isoform X3

  10. XM_005259289.3XP_005259346.2  zinc finger protein neuro-d4 isoform X10

  11. XM_011527356.2XP_011525658.2  zinc finger protein neuro-d4 isoform X7

  12. XM_011527358.3XP_011525660.1  zinc finger protein neuro-d4 isoform X12

    See identical proteins and their annotated locations for XP_011525660.1

    Conserved Domains (4) summary
    COG5189
    Location:130164
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    cd15530
    Location:272327
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15690
    Location:214271
    PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
    pfam14051
    Location:123
    Requiem_N; N-terminal domain of DPF2/REQ
  13. XM_006723409.3XP_006723472.1  zinc finger protein neuro-d4 isoform X13

    See identical proteins and their annotated locations for XP_006723472.1

    Conserved Domains (2) summary
    cd15530
    Location:172227
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cl22851
    Location:114171
    PHD_SF; PHD finger superfamily
  14. XM_006723410.2XP_006723473.1  zinc finger protein neuro-d4 isoform X13

    See identical proteins and their annotated locations for XP_006723473.1

    Conserved Domains (2) summary
    cd15530
    Location:172227
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cl22851
    Location:114171
    PHD_SF; PHD finger superfamily
  15. XM_047439494.1XP_047295450.1  zinc finger protein neuro-d4 isoform X14

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    41013164..41031861 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)