Sp100 nuclear antigen Sp100 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Sp100provided by MGI
Official Full Name: nuclear antigen Sp100provided by MGI
Primary source: MGI:MGI:109561
See related: Ensembl:ENSMUSG00000026222 AllianceGenome:MGI:109561
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: A430075G10Rik
Summary: Predicted to enable several functions, including DNA-binding transcription factor activity, RNA polymerase II-specific; chromo shadow domain binding activity; and protein homodimerization activity. Predicted to be involved in several processes, including innate immune response; regulation of signal transduction; and regulation of transcription, DNA-templated. Predicted to be located in cytoplasm and nuclear lumen. Predicted to be part of Mre11 complex. Predicted to be active in nucleus. Is expressed in eye; olfactory placode; and otic pit. Orthologous to human SP100 (SP100 nuclear antigen). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in thymus adult (RPKM 9.0), spleen adult (RPKM 7.8) and 20 other tissues See more
Orthologs: human all
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Genomic context

Location:: 1 C5; 1 43.6 cM

Exon count:: 24

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	1	NC_000067.7 (85577683..85637719)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	1	NC_000067.6 (85649948..85709998)

Chromosome 1 - NC_000067.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Findings demonstrated that spheroids from pancreatic cancer cells caused circular defects in lymphatic endothelial monolayers. These CCIDs in pancreatic cancer were partly regulated by S100P.
Title: S100P regulates the collective invasion of pancreatic cancer cells into the lymphatic endothelial monolayer.
identification and analysis of the genes Sp100, Csprs, and Ifi75 in two members of the genus Mus, M. musculus and M. caroli
Title: Source and component genes of a 6-200 Mb gene cluster in the house mouse.

Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (1)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AW822418 (e-PCR)
- UniSTS:207182

BE688095 (e-PCR)
- UniSTS:207183

BB236200 (e-PCR)
- UniSTS:207185

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 DNA-binding transcription factor activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II-specific DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables chromo shadow domain binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables kinase binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein dimerization activity	ISO Inferred from Sequence Orthology more info
enables protein domain specific binding	ISO Inferred from Sequence Orthology more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in DNA damage response, signal transduction by p53 class mediator	ISO Inferred from Sequence Orthology more info
involved_in maintenance of protein location	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA binding	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of endothelial cell migration	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of protein export from nucleus	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of viral transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of Fas signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in regulation of angiogenesis	ISO Inferred from Sequence Orthology more info
involved_in regulation of extrinsic apoptotic signaling pathway via death domain receptors	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 response to cytokine	ISO Inferred from Sequence Orthology more info
involved_in response to retinoic acid	ISO Inferred from Sequence Orthology more info
involved_in response to type I interferon	ISO Inferred from Sequence Orthology more info
involved_in response to type II interferon	ISO Inferred from Sequence Orthology more info
involved_in telomere maintenance	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of Mre11 complex	ISO Inferred from Sequence Orthology more info
located_in PML body	ISO Inferred from Sequence Orthology more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in nuclear body	ISO Inferred from Sequence Orthology more info
located_in nuclear periphery	ISO Inferred from Sequence Orthology more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info	PubMed

General protein information

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Preferred Names: nuclear autoantigen Sp-100

Names: nuclear dot-associated Sp100 protein; speckled 100 kDa

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)

NM_001313712.1 → NP_001300641.1 nuclear autoantigen Sp-100 isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks multiple 3' coding exons and extends past a splice site used in variant 1, resulting in a distinct 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (2) has a distinct, shorter C-terminus than isoform 1.

Source sequence(s)

AA162577, AC147806, AC161342, AK080004, U83630

Consensus CDS

CCDS83568.1

UniProtKB/Swiss-Prot

E9PY02, O35892, O35897, O88392, O88395

UniProtKB/TrEMBL

Q4FK53

Related

ENSMUSP00000118481.2, ENSMUST00000155094.8

Conserved Domains (2) summary

pfam01342
Location:383 → 458

SAND; SAND domain

pfam03172
Location:24 → 116

Sp100; Sp100 domain
NM_001313713.1 → NP_001300642.1 nuclear autoantigen Sp-100 isoform 3

Status: VALIDATED

Description

Transcript Variant: This variant (3) lacks an internal in-frame exon and lacks multiple 3' coding exons and extends past a splice site used in variant 1, resulting in a distinct 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (3) is shorter than isoform 1.

Source sequence(s)

AA162577, AC147806, AK152348, U83636

Consensus CDS

CCDS83569.1

UniProtKB/TrEMBL

Q3U876, Q6NTA3

Related

ENSMUSP00000116942.2, ENSMUST00000147552.8

Conserved Domains (2) summary

pfam01342
Location:365 → 440

SAND; SAND domain

pfam03172
Location:24 → 116

Sp100; Sp100 domain
NM_001313714.1 → NP_001300643.1 nuclear autoantigen Sp-100 isoform 4

Status: VALIDATED

Description

Transcript Variant: This variant (4) lacks multiple 3' coding exons and contains an alternate 3' terminal exon, resulting in a distinct 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (4) has a distinct, shorter C-terminus than isoform 1.

Source sequence(s)

AC147806, AK146054

Consensus CDS

CCDS83567.1

UniProtKB/TrEMBL

E9Q4Y0, Q3UKD8, Q8C9H3

Related

ENSMUSP00000051705.9, ENSMUST00000054279.15

Conserved Domains (1) summary

pfam03172
Location:24 → 116

Sp100; Sp100 domain
NM_001372231.1 → NP_001359160.1 nuclear autoantigen Sp-100 isoform 5

Status: VALIDATED

Description

Transcript Variant: This variant (5) represents the longest variant and encodes the longest isoform (5).

Source sequence(s)

AC147806, AC161342

Conserved Domains (4) summary

cd05501
Location:552 → 652

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 ...

cd15626
Location:484 → 525

PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components

pfam01342
Location:385 → 458

SAND; SAND domain

pfam03172
Location:23 → 119

HSR; HSR domain
NM_001372232.1 → NP_001359161.1 nuclear autoantigen Sp-100 isoform 6

Status: VALIDATED

Source sequence(s)

AC147806, AC161342

Conserved Domains (4) summary

cd05501
Location:527 → 627

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 ...

cd15626
Location:459 → 500

PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components

pfam01342
Location:360 → 433

SAND; SAND domain

pfam03172
Location:23 → 119

HSR; HSR domain
NM_013673.4 → NP_038701.2 nuclear autoantigen Sp-100 isoform 1

See identical proteins and their annotated locations for NP_038701.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) lacks an alternate in-frame segment compared to variant 5. The resulting isoform (1) has the same N- and C-termini but is shorter compared to isoform 5.

Source sequence(s)

AA277101, AC147806, AK083304, AV284523

Consensus CDS

CCDS35639.1

UniProtKB/TrEMBL

E9QA05, Q8C405

Related

ENSMUSP00000066399.5, ENSMUST00000066427.11

Conserved Domains (3) summary

cd05501
Location:474 → 574

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 ...

pfam01342
Location:383 → 458

SAND; SAND domain

pfam03172
Location:24 → 116

Sp100; Sp100 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

NC_000067.7 Reference GRCm39 C57BL/6J

Range

85577683..85637719

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006529283.5 → XP_006529346.2 nuclear autoantigen Sp-100 isoform X4

Conserved Domains (4) summary

cd05501
Location:533 → 633

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 ...

cd15626
Location:465 → 506

PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components

pfam01342
Location:366 → 439

SAND; SAND domain

pfam03172
Location:23 → 119

HSR; HSR domain
XM_036163002.1 → XP_036018895.1 nuclear autoantigen Sp-100 isoform X6

Conserved Domains (4) summary

cd05501
Location:508 → 608

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 ...

cd15626
Location:440 → 481

PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components

pfam01342
Location:339 → 414

SAND; SAND domain

pfam03172
Location:23 → 119

HSR; HSR domain
XM_017319442.3 → XP_017174931.1 nuclear autoantigen Sp-100 isoform X2

Conserved Domains (4) summary

cd05501
Location:551 → 651

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 ...

cd15626
Location:483 → 524

PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components

pfam01342
Location:385 → 458

SAND; SAND domain

pfam03172
Location:23 → 119

HSR; HSR domain
XM_006529281.5 → XP_006529344.2 nuclear autoantigen Sp-100 isoform X1

Conserved Domains (4) summary

cd05501
Location:551 → 651

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 ...

cd15626
Location:484 → 524

PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components

pfam01342
Location:385 → 458

SAND; SAND domain

pfam03172
Location:23 → 119

HSR; HSR domain
XM_006529282.5 → XP_006529345.2 nuclear autoantigen Sp-100 isoform X3

Conserved Domains (4) summary

cd05501
Location:534 → 634

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 ...

cd15626
Location:466 → 507

PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components

pfam01342
Location:367 → 440

SAND; SAND domain

pfam03172
Location:23 → 119

HSR; HSR domain
XM_006529286.5 → XP_006529349.2 nuclear autoantigen Sp-100 isoform X5

Conserved Domains (4) summary

cd05501
Location:509 → 609

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 ...

cd15626
Location:441 → 482

PHD_SP110_140; PHD finger found in the Sp100/Sp140 family of nuclear body components

pfam01342
Location:342 → 415

SAND; SAND domain

pfam03172
Location:23 → 119

HSR; HSR domain
XM_017319443.3 → XP_017174932.1 nuclear autoantigen Sp-100 isoform X8

UniProtKB/TrEMBL

E9QA05

Conserved Domains (3) summary

pfam01342
Location:385 → 458

SAND; SAND domain

pfam03172
Location:23 → 119

HSR; HSR domain

cl02556
Location:469 → 501

Bromodomain; Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
XM_011247950.4 → XP_011246252.2 nuclear autoantigen Sp-100 isoform X9

UniProtKB/TrEMBL

Q4FK53

Conserved Domains (2) summary

pfam01342
Location:385 → 458

SAND; SAND domain

pfam03172
Location:23 → 119

HSR; HSR domain
XM_006529288.5 → XP_006529351.2 nuclear autoantigen Sp-100 isoform X7

UniProtKB/TrEMBL

E9QA05

Related

ENSMUSP00000122670.2, ENSMUST00000153574.8

Conserved Domains (3) summary

pfam01342
Location:385 → 458

SAND; SAND domain

pfam03172
Location:23 → 119

HSR; HSR domain

cl02556
Location:470 → 502

Bromodomain; Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.