Satb1 special AT-rich sequence binding protein 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Satb1provided by MGI
Official Full Name: special AT-rich sequence binding protein 1provided by MGI
Primary source: MGI:MGI:105084
See related: Ensembl:ENSMUSG00000023927 AllianceGenome:MGI:105084
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: 2610306G12Rik
Summary: Enables several functions, including DNA-binding transcription factor activity; DNA-binding transcription factor binding activity; and chromatin binding activity. Acts upstream of or within several processes, including T cell activation; negative regulation of transcription by RNA polymerase II; and reflex. Located in heterochromatin and nuclear matrix. Is expressed in several structures, including alimentary system; genitourinary system; nervous system; respiratory system; and sensory organ. Used to study Sjogren's syndrome. Orthologous to human SATB1 (SATB homeobox 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in thymus adult (RPKM 74.6), cortex adult (RPKM 7.3) and 5 other tissues See more
Orthologs: human all
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Genomic context

Location:: 17 C; 17 26.81 cM

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	17	NC_000083.7 (52043215..52140318, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	17	NC_000083.6 (51736187..51833290, complement)

Chromosome 17 - NC_000083.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data 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?

SATB1 prevents immune cell infiltration by regulating chromatin organization and gene expression of a chemokine gene cluster in T cells.
Title: SATB1 prevents immune cell infiltration by regulating chromatin organization and gene expression of a chemokine gene cluster in T cells.
Long Non-Coding RNA ANRIL Regulates Inflammatory Factor Expression in Ulcerative Colitis Via the miR-191-5p/SATB1 Axis.
Title: Long Non-Coding RNA ANRIL Regulates Inflammatory Factor Expression in Ulcerative Colitis Via the miR-191-5p/SATB1 Axis.
A dual function for the chromatin organizer Special A-T rich Binding Protein 1 in B-lineage cells.
Title: A dual function for the chromatin organizer Special A-T rich Binding Protein 1 in B-lineage cells.
SATB1 regulates 3D genome architecture in T cells by constraining chromatin interactions surrounding CTCF-binding sites.
Title: SATB1 regulates 3D genome architecture in T cells by constraining chromatin interactions surrounding CTCF-binding sites.
Crucial Roles of SATB1 in Regulation of Thymocyte Migration after Positive Selection.
Title: Crucial Roles of SATB1 in Regulation of Thymocyte Migration after Positive Selection.
Identification of a novel enhancer essential for Satb1 expression in TH2 cells and activated ILC2s.
Title: Identification of a novel enhancer essential for Satb1 expression in T(H)2 cells and activated ILC2s.
The role of selective SATB1 deletion in somatostatin expressing interneurons on endogenous network activity and the transition to epilepsy.
Title: The role of selective SATB1 deletion in somatostatin expressing interneurons on endogenous network activity and the transition to epilepsy.
Reduced Satb1 expression predisposes CD4(+) T conventional cells to Treg suppression and promotes transplant survival.
Title: Reduced Satb1 expression predisposes CD4(+) T conventional cells to Treg suppression and promotes transplant survival.
SATB1 ensures appropriate transcriptional programs within naive CD8(+) T cells.
Title: SATB1 ensures appropriate transcriptional programs within naïve CD8(+) T cells.
Special AT-Rich Sequence-Binding Protein 1 Supports Survival and Maturation of Naive B Cells Stimulated by B Cell Receptors.
Title: Special AT-Rich Sequence-Binding Protein 1 Supports Survival and Maturation of Naive B Cells Stimulated by B Cell Receptors.

Submit: New GeneRIF Correction See all GeneRIFs (53)

Variation

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Alleles

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

Chemically induced (ENU) (1)
Endonuclease-mediated (4) 1 citation
Targeted (9) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AW413156 (e-PCR)
- UniSTS:181035

Satb1 (e-PCR), detects polymorphism
- UniSTS:507206

U05252 (e-PCR)
- UniSTS:160671

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription factor binding	IPI Inferred from Physical Interaction more info	PubMed
enables DNA-binding transcription repressor activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within CD4-positive, alpha-beta T cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within CD8-positive, alpha-beta T cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within T cell activation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within activated T cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within chromatin organization	IDA Inferred from Direct Assay more info	PubMed
involved_in chromatin remodeling	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within chromatin remodeling	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within epidermis development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within reflex	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in PML body	IEA Inferred from Electronic Annotation more info
located_in PML body	ISO Inferred from Sequence Orthology more info
located_in chromatin	IDA Inferred from Direct Assay more info	PubMed
located_in heterochromatin	IDA Inferred from Direct Assay more info	PubMed
located_in nuclear body	ISO Inferred from Sequence Orthology more info
located_in nuclear matrix	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: DNA-binding protein SATB1

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_001163630.1 → NP_001157102.1 DNA-binding protein SATB1 isoform 1

See identical proteins and their annotated locations for NP_001157102.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript. Variants 1-4 encode the same protein.

Source sequence(s)

AC131975, AK037740, AK081385, AK158518, AW045567, CV556064

Consensus CDS

CCDS28876.1

UniProtKB/Swiss-Prot

Q60611, Q91XB1

Related

ENSMUSP00000119842.3, ENSMUST00000152830.9

Conserved Domains (4) summary

smart00389
Location:645 → 702

HOX; Homeodomain

pfam02376
Location:372 → 439

CUT; CUT domain

pfam16534
Location:72 → 170

ULD; Ubiquitin-like oligomerization domain of SATB

pfam16557
Location:180 → 246

CUTL; CUT1-like DNA-binding domain of SATB
NM_001163631.1 → NP_001157103.1 DNA-binding protein SATB1 isoform 1

See identical proteins and their annotated locations for NP_001157103.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1-4 encode the same protein.

Source sequence(s)

AC131975, AK037740, AK081385, AK134040, AW045567, BB611616

Consensus CDS

CCDS28876.1

UniProtKB/Swiss-Prot

Q60611, Q91XB1

Related

ENSMUSP00000128841.2, ENSMUST00000169480.8

Conserved Domains (4) summary

smart00389
Location:645 → 702

HOX; Homeodomain

pfam02376
Location:372 → 439

CUT; CUT domain

pfam16534
Location:72 → 170

ULD; Ubiquitin-like oligomerization domain of SATB

pfam16557
Location:180 → 246

CUTL; CUT1-like DNA-binding domain of SATB
NM_001163632.1 → NP_001157104.1 DNA-binding protein SATB1 isoform 1

See identical proteins and their annotated locations for NP_001157104.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. Variants 1-4 encode the same protein.

Source sequence(s)

AC131975, AC154796, AK037740, AK081385, AK134040, AW045567

Consensus CDS

CCDS28876.1

UniProtKB/Swiss-Prot

Q60611, Q91XB1

Related

ENSMUSP00000120536.2, ENSMUST00000133574.8

Conserved Domains (4) summary

smart00389
Location:645 → 702

HOX; Homeodomain

pfam02376
Location:372 → 439

CUT; CUT domain

pfam16534
Location:72 → 170

ULD; Ubiquitin-like oligomerization domain of SATB

pfam16557
Location:180 → 246

CUTL; CUT1-like DNA-binding domain of SATB
NM_001357636.1 → NP_001344565.1 DNA-binding protein SATB1 isoform 2

Status: VALIDATED

Source sequence(s)

AC131975, AC154796, AW045567

Conserved Domains (4) summary

smart00389
Location:677 → 734

HOX; Homeodomain

pfam02376
Location:372 → 439

CUT; CUT domain

pfam16534
Location:72 → 170

ULD; Ubiquitin-like oligomerization domain of SATB

pfam16557
Location:180 → 246

CUTL; CUT1-like DNA-binding domain of SATB
NM_001357637.1 → NP_001344566.1 DNA-binding protein SATB1 isoform 3

Status: VALIDATED

Source sequence(s)

AC131975, AC154796, AW045567

Conserved Domains (4) summary

smart00389
Location:644 → 701

HOX; Homeodomain

pfam02376
Location:372 → 439

CUT; CUT domain

pfam16534
Location:72 → 170

ULD; Ubiquitin-like oligomerization domain of SATB

pfam16557
Location:180 → 246

CUTL; CUT1-like DNA-binding domain of SATB
NM_001357638.1 → NP_001344567.1 DNA-binding protein SATB1 isoform 1

Status: VALIDATED

Source sequence(s)

AC131975, AC154796, AW045567

Consensus CDS

CCDS28876.1

UniProtKB/Swiss-Prot

Q60611, Q91XB1

Conserved Domains (4) summary

smart00389
Location:645 → 702

HOX; Homeodomain

pfam02376
Location:372 → 439

CUT; CUT domain

pfam16534
Location:72 → 170

ULD; Ubiquitin-like oligomerization domain of SATB

pfam16557
Location:180 → 246

CUTL; CUT1-like DNA-binding domain of SATB
NM_001357640.1 → NP_001344569.1 DNA-binding protein SATB1 isoform 4

Status: VALIDATED

Source sequence(s)

AC131975, AC154796, AW045567

Conserved Domains (4) summary

smart00389
Location:625 → 682

HOX; Homeodomain

cd11585
Location:74 → 169

SATB1_N; N-terminal domain of SATB1 and similar proteins

pfam02376
Location:366 → 443

CUT; CUT domain

pfam16557
Location:176 → 246

CUTL; CUT1-like DNA-binding domain of SATB
NM_009122.2 → NP_033148.2 DNA-binding protein SATB1 isoform 1

See identical proteins and their annotated locations for NP_033148.2

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1-4 encode the same protein.

Source sequence(s)

AC131975, AK037740, AK081385, AK134040, AW045567

Consensus CDS

CCDS28876.1

UniProtKB/Swiss-Prot

Q60611, Q91XB1

Related

ENSMUSP00000116006.2, ENSMUST00000144331.8

Conserved Domains (4) summary

smart00389
Location:645 → 702

HOX; Homeodomain

pfam02376
Location:372 → 439

CUT; CUT domain

pfam16534
Location:72 → 170

ULD; Ubiquitin-like oligomerization domain of SATB

pfam16557
Location:180 → 246

CUTL; CUT1-like DNA-binding domain of SATB

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_000083.7 Reference GRCm39 C57BL/6J

Range

52043215..52140318 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006523926.5 → XP_006523989.1 DNA-binding protein SATB1 isoform X1

See identical proteins and their annotated locations for XP_006523989.1

Conserved Domains (4) summary

smart00389
Location:677 → 734

HOX; Homeodomain

pfam02376
Location:372 → 439

CUT; CUT domain

pfam16534
Location:72 → 170

ULD; Ubiquitin-like oligomerization domain of SATB

pfam16557
Location:180 → 246

CUTL; CUT1-like DNA-binding domain of SATB
XM_006523925.3 → XP_006523988.1 DNA-binding protein SATB1 isoform X1

See identical proteins and their annotated locations for XP_006523988.1

Conserved Domains (4) summary

smart00389
Location:677 → 734

HOX; Homeodomain

pfam02376
Location:372 → 439

CUT; CUT domain

pfam16534
Location:72 → 170

ULD; Ubiquitin-like oligomerization domain of SATB

pfam16557
Location:180 → 246

CUTL; CUT1-like DNA-binding domain of SATB
XM_017317366.3 → XP_017172855.1 DNA-binding protein SATB1 isoform X3

Conserved Domains (4) summary

smart00389
Location:593 → 650

HOX; Homeodomain

pfam02376
Location:372 → 439

CUT; CUT domain

pfam16534
Location:72 → 170

ULD; Ubiquitin-like oligomerization domain of SATB

pfam16557
Location:180 → 246

CUTL; CUT1-like DNA-binding domain of SATB
XM_006523924.4 → XP_006523987.1 DNA-binding protein SATB1 isoform X1

See identical proteins and their annotated locations for XP_006523987.1

Conserved Domains (4) summary

smart00389
Location:677 → 734

HOX; Homeodomain

pfam02376
Location:372 → 439

CUT; CUT domain

pfam16534
Location:72 → 170

ULD; Ubiquitin-like oligomerization domain of SATB

pfam16557
Location:180 → 246

CUTL; CUT1-like DNA-binding domain of SATB
XM_036160424.1 → XP_036016317.1 DNA-binding protein SATB1 isoform X4

Conserved Domains (4) summary

smart00389
Location:592 → 649

HOX; Homeodomain

pfam02376
Location:372 → 444

CUT; CUT domain

pfam16534
Location:72 → 170

ULD; Ubiquitin-like oligomerization domain of SATB

pfam16557
Location:176 → 246

CUTL; CUT1-like DNA-binding domain of SATB
XM_006523927.5 → XP_006523990.1 DNA-binding protein SATB1 isoform X2

UniProtKB/TrEMBL

E9PVB7

Related

ENSMUSP00000118839.2, ENSMUST00000140979.8

Conserved Domains (4) summary

smart00389
Location:676 → 733

HOX; Homeodomain

pfam02376
Location:372 → 439

CUT; CUT domain

pfam16534
Location:72 → 170

ULD; Ubiquitin-like oligomerization domain of SATB

pfam16557
Location:180 → 246

CUTL; CUT1-like DNA-binding domain of SATB