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SP140 SP140 nuclear body protein [ Homo sapiens (human) ]

Gene ID: 11262, updated on 12-May-2016
Official Symbol
SP140provided by HGNC
Official Full Name
SP140 nuclear body proteinprovided by HGNC
Primary source
HGNC:HGNC:17133
See related
Ensembl:ENSG00000079263 HPRD:09780; MIM:608602; Vega:OTTHUMG00000153670
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
LYSP100; LYSP100-A; LYSP100-B
Orthologs
Location:
2q37.1
Exon count:
33
Annotation release Status Assembly Chr Location
107 current GRCh38.p2 (GCF_000001405.28) 2 NC_000002.12 (230202742..230316616)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (231090445..231177930)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105373924 Neighboring gene F-box protein 36 Neighboring gene solute carrier family 16 member 14 Neighboring gene RNA, Ro-associated Y4 pseudogene 19 Neighboring gene SP110 nuclear body protein Neighboring gene SP140 nuclear body protein like Neighboring gene uncharacterized LOC105373925 Neighboring gene uncharacterized LOC101928816 Neighboring gene SP100 nuclear antigen Neighboring gene high mobility group box 1 pseudogene 3

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

NHGRI GWAS Catalog

Description
A genome-wide association study identifies multiple susceptibility loci for chronic lymphocytic leukemia.
NHGRI GWA Catalog
A genome-wide association study identifies six susceptibility loci for chronic lymphocytic leukemia.
NHGRI GWA Catalog
Common variation at 6p21.31 (BAK1) influences the risk of chronic lymphocytic leukemia.
NHGRI GWA Catalog
Genetic risk and a primary role for cell-mediated immune mechanisms in multiple sclerosis.
NHGRI GWA Catalog
Genome-wide association study identifies multiple risk loci for chronic lymphocytic leukemia.
NHGRI GWA Catalog
Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci.
NHGRI GWA Catalog
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
NHGRI GWA Catalog

Protein interactions

Protein Gene Interaction Pubs
Vif vif Wild-type HIV-1 Vif binds to the carboxyl-terminal region of Sp140 between amino acids 527-836, while Vif mutants with deletions of amino acids 12-23, 43-59, 73-87 or 97-112 are strongly inhibited in their binding to Sp140 PubMed
vif HIV-1 Vif may enhance the cytosolic retention of Sp140 PubMed
vif Specific binding of HIV-1 Vif to Sp140 was identified using a yeast two-hybrid screen of a human lymphocyte cDNA library and verified by co-immunoprecipitation PubMed

Go to the HIV-1, Human Interaction Database

Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Clone Names

  • MGC126440

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
transcription factor activity, sequence-specific DNA binding TAS
Traceable Author Statement
more info
PubMed 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
defense response TAS
Traceable Author Statement
more info
PubMed 
regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
PML body IEA
Inferred from Electronic Annotation
more info
 
mitochondrion IDA
Inferred from Direct Assay
more info
 
nuclear envelope TAS
Traceable Author Statement
more info
PubMed 
nucleolus IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
PubMed 
nucleus TAS
Traceable Author Statement
more info
PubMed 
Preferred Names
nuclear body protein SP140
Names
lymphoid-restricted homolog of Sp100
lymphoid-specific SP100 homolog
nuclear autoantigen Sp-140
speckled 140 kDa

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_001005176.2NP_001005176.1  nuclear body protein SP140 isoform 2

    See identical proteins and their annotated locations for NP_001005176.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks multiple 3' exons, and has an alternate 3' sequence, as compared to variant 1. The encoded isoform 2 is much shorter and has a distinct C-terminus, as compared to isoform 1.
    Source sequence(s)
    AA741304, AK301267, BC070160
    Consensus CDS
    CCDS33392.1
    UniProtKB/Swiss-Prot
    Q13342
    UniProtKB/TrEMBL
    B4DVW8
    Related
    ENSP00000362749, OTTHUMP00000204295, ENST00000373645, OTTHUMT00000332016
    Conserved Domains (1) summary
    pfam03172
    Location:36136
    Sp100; Sp100 domain
  2. NM_001278451.1NP_001265380.1  nuclear body protein SP140 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon 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)
    AC009949, BC105960, DC391925, U36499
    Consensus CDS
    CCDS63150.1
    UniProtKB/Swiss-Prot
    Q13342
    Related
    ENSP00000398210, ENST00000420434
    Conserved Domains (4) summary
    cd05501
    Location:730833
    Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
    pfam03172
    Location:36139
    Sp100; Sp100 domain
    pfam01342
    Location:553634
    SAND; SAND domain
    cd15626
    Location:665706
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
  3. NM_001278452.1NP_001265381.1  nuclear body protein SP140 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks two alternate in-frame exons compared to variant 1. The resulting isoform (4) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AC009949, BC105744, DC391925, U36499
    Consensus CDS
    CCDS63151.1
    UniProtKB/Swiss-Prot
    Q13342
    UniProtKB/TrEMBL
    Q0VGE4
    Related
    ENSP00000342096, OTTHUMP00000207180, ENST00000343805, OTTHUMT00000338219
    Conserved Domains (5) summary
    cd05501
    Location:697800
    Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
    pfam03172
    Location:36139
    Sp100; Sp100 domain
    PHA03169
    Location:202419
    PHA03169; hypothetical protein; Provisional
    pfam01342
    Location:520601
    SAND; SAND domain
    cd15626
    Location:632673
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
  4. NM_001278453.1NP_001265382.1  nuclear body protein SP140 isoform 5

    See identical proteins and their annotated locations for NP_001265382.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks three alternate in-frame exons and uses an alternate in-frame splice junction at the 3' end of an exon compared to variant 1. The resulting isoform (5) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AC009949, AC009950, DC391925, U36499, U63420
    Consensus CDS
    CCDS63149.1
    UniProtKB/Swiss-Prot
    Q13342
    Related
    ENSP00000393618, OTTHUMP00000204296, ENST00000417495, OTTHUMT00000332017
    Conserved Domains (4) summary
    cd05501
    Location:643746
    Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
    pfam03172
    Location:36139
    Sp100; Sp100 domain
    pfam01342
    Location:466547
    SAND; SAND domain
    cd15626
    Location:578619
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
  5. NM_007237.4NP_009168.4  nuclear body protein SP140 isoform 1

    See identical proteins and their annotated locations for NP_009168.4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC009949, AK301267, BC038091, BC105960, U36500
    Consensus CDS
    CCDS42831.1
    UniProtKB/Swiss-Prot
    Q13342
    UniProtKB/TrEMBL
    B4DVW8, Q8IWJ1
    Related
    ENSP00000375899, OTTHUMP00000204294, ENST00000392045, OTTHUMT00000332015
    Conserved Domains (4) summary
    cd05501
    Location:757860
    Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
    pfam03172
    Location:36139
    Sp100; Sp100 domain
    pfam01342
    Location:580661
    SAND; SAND domain
    cd15626
    Location:692733
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 107 details...

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

Reference GRCh38.p2 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p2 Primary Assembly

    Range
    230202742..230316616
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011510517.1XP_011508819.1  

    See identical proteins and their annotated locations for XP_011508819.1

    Conserved Domains (4) summary
    cd05501
    Location:737840
    Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
    pfam03172
    Location:16119
    Sp100; Sp100 domain
    pfam01342
    Location:560641
    SAND; SAND domain
    cd15626
    Location:672713
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
  2. XM_006712223.2XP_006712286.1  

    Conserved Domains (4) summary
    pfam03172
    Location:36139
    Sp100; Sp100 domain
    pfam01342
    Location:580661
    SAND; SAND domain
    cl02556
    Location:757838
    Bromodomain; Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
    cd15626
    Location:692733
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
  3. XM_011510516.1XP_011508818.1  

    Conserved Domains (4) summary
    cd05501
    Location:748851
    Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
    pfam03172
    Location:36139
    Sp100; Sp100 domain
    pfam01342
    Location:580661
    SAND; SAND domain
    cd15626
    Location:692726
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
  4. XM_011510515.1XP_011508817.1  

    Conserved Domains (4) summary
    cd05501
    Location:751854
    Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
    pfam03172
    Location:36139
    Sp100; Sp100 domain
    pfam01342
    Location:574655
    SAND; SAND domain
    cd15626
    Location:686727
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
  5. XM_005246254.2XP_005246311.1  

    Conserved Domains (4) summary
    cd05501
    Location:723826
    Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
    pfam03172
    Location:36139
    Sp100; Sp100 domain
    pfam01342
    Location:546627
    SAND; SAND domain
    cd15626
    Location:658699
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
  6. XM_011510519.1XP_011508821.1  

    Conserved Domains (4) summary
    cd05501
    Location:730833
    Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
    pfam03172
    Location:36139
    Sp100; Sp100 domain
    pfam01342
    Location:553634
    SAND; SAND domain
    cd15626
    Location:665706
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
  7. XM_005246256.2XP_005246313.1  

    Conserved Domains (4) summary
    cd05501
    Location:696799
    Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
    pfam03172
    Location:36139
    Sp100; Sp100 domain
    pfam01342
    Location:519600
    SAND; SAND domain
    cd15626
    Location:631672
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
  8. XM_005246255.2XP_005246312.1  

    Conserved Domains (4) summary
    cd05501
    Location:707810
    Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
    pfam03172
    Location:36139
    Sp100; Sp100 domain
    pfam01342
    Location:530611
    SAND; SAND domain
    cd15626
    Location:642683
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
  9. XM_005246253.2XP_005246310.1  

    Conserved Domains (5) summary
    cd05501
    Location:731834
    Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
    pfam03172
    Location:36139
    Sp100; Sp100 domain
    PHA03169
    Location:202453
    PHA03169; hypothetical protein; Provisional
    pfam01342
    Location:554635
    SAND; SAND domain
    cd15626
    Location:666707
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
  10. XM_011510521.1XP_011508823.1  

    Conserved Domains (4) summary
    cd05501
    Location:681784
    Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
    pfam03172
    Location:36139
    Sp100; Sp100 domain
    pfam01342
    Location:504585
    SAND; SAND domain
    cd15626
    Location:616657
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
  11. XM_005246252.2XP_005246309.1  

    Conserved Domains (4) summary
    cd05501
    Location:754857
    Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
    pfam03172
    Location:36139
    Sp100; Sp100 domain
    pfam01342
    Location:577658
    SAND; SAND domain
    cd15626
    Location:689730
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
  12. XM_011510520.1XP_011508822.1  

    Conserved Domains (4) summary
    cd05501
    Location:728831
    Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
    pfam03172
    Location:36139
    Sp100; Sp100 domain
    pfam01342
    Location:551632
    SAND; SAND domain
    cd15626
    Location:663704
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
  13. XM_011510522.1XP_011508824.1  

    Conserved Domains (4) summary
    cd05501
    Location:678781
    Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
    pfam03172
    Location:36139
    Sp100; Sp100 domain
    pfam01342
    Location:501582
    SAND; SAND domain
    cd15626
    Location:613654
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components
  14. XM_011510523.1XP_011508825.1  

    Conserved Domains (2) summary
    pfam03172
    Location:36139
    Sp100; Sp100 domain
    cl02536
    Location:580608
    SAND; SAND domain
  15. XM_011510518.1XP_011508820.1  

    See identical proteins and their annotated locations for XP_011508820.1

    Conserved Domains (4) summary
    cd05501
    Location:737840
    Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
    pfam03172
    Location:16119
    Sp100; Sp100 domain
    pfam01342
    Location:560641
    SAND; SAND domain
    cd15626
    Location:672713
    PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components

RNA

  1. XR_922832.1 RNA Sequence

Alternate CHM1_1.1

Genomic

  1. NC_018913.2 Alternate CHM1_1.1

    Range
    231096298..231183775
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)