Satb1 SATB homeobox 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Satb1provided by RGD
Official Full Name: SATB homeobox 1provided by RGD
Primary source: RGD:1305561
See related: Ensembl:ENSRNOG00000012942 AllianceGenome:RGD:1305561
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable several functions, including DNA-binding transcription repressor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and chromatin binding activity. Predicted to be involved in chromatin remodeling and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including T cell activation; histone methylation; and negative regulation of transcription by RNA polymerase II. Predicted to be located in PML body; heterochromatin; and nuclear matrix. Orthologous to human SATB1 (SATB homeobox 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 1186.9), Spleen (RPKM 92.9) and 1 other tissue See more
Orthologs: human mouse all
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Genomic context

Location:: 9q11

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (4916958..5010359, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (4677817..4773061, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (2181135..2277949)

Chromosome 9 - NC_086027.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

SATB1 promotes osteogenic differentiation of diabetic rat BMSCs through MAPK signalling activation.
Title: SATB1 promotes osteogenic differentiation of diabetic rat BMSCs through MAPK signalling activation.
SATB1 promotion of trophoblast stem cell renewal through regulation of threonine dehydrogenase.
Title: SATB1 promotion of trophoblast stem cell renewal through regulation of threonine dehydrogenase.
Study in primary rat Schwann cells found that knock-out of Satb1 significantly inhibited cell viability and migration and promoted Schwann cells apoptosis. Over-expression of Satb1 promoted cell viability, migration, and inhibited apoptosis. Satb1 activates the PI3K/AKT signaling pathway by inhibiting the expression of SHIP1 by recruiting HDAC1.
Title: Satb1 promotes Schwann cell viability and migration via activation of PI3K/AKT pathway.
High SATB1 expression is associated with diabetes.
Title: Changes in expression of special AT-rich sequence binding protein 1 and phosphatase and tensin homologue in kidneys of diabetic rats during ageing.
Data suggest that SATB1 expression is down-regulated during activation of hepatic stellate cell in liver fibrosis; up-regulation of SATB1 expression appears to reduce such cell activation, cell proliferation, cell migration, and collagen synthesis.
Title: Suppressive effect of SATB1 on hepatic stellate cell activation and liver fibrosis in rats.

Submit: New GeneRIF Correction

General gene information

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Markers

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

U05252 (e-PCR)
- UniSTS:160671

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology 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 binding	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within CD8-positive, alpha-beta T cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within T cell activation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within activated T cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within chromatin organization	ISO Inferred from Sequence Orthology more info
involved_in chromatin remodeling	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within chromatin remodeling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within epidermis development	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	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

Component	Evidence Code	Pubs
located_in PML body	ISO Inferred from Sequence Orthology more info
part_of chromatin	ISO Inferred from Sequence Orthology more info
part_of heterochromatin	ISO Inferred from Sequence Orthology more info
located_in nuclear body	ISO Inferred from Sequence Orthology more info
located_in nuclear matrix	ISO Inferred from Sequence Orthology more info
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

Names: special AT-rich sequence binding protein 1

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_001012129.2 → NP_001012129.1 DNA-binding protein SATB1

See identical proteins and their annotated locations for NP_001012129.1

Status: PROVISIONAL

Source sequence(s)

BC085814

UniProtKB/TrEMBL

Q5U2Y2

Conserved Domains (4) summary

smart00389
Location:645 → 702

HOX; Homeodomain

pfam02376
Location:494 → 566

CUT; CUT domain

pfam16534
Location:72 → 170

ULD; Ubiquitin-like oligomerization domain of SATB

pfam16557
Location:200 → 247

CUTL; CUT1-like DNA-binding domain of SATB

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086027.1 Reference GRCr8

Range

4916958..5010359 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063267079.1 → XP_063123149.1 DNA-binding protein SATB1 isoform X6

UniProtKB/TrEMBL

Q5U2Y2
XM_063267074.1 → XP_063123144.1 DNA-binding protein SATB1 isoform X2

UniProtKB/TrEMBL

A0A0G2JYZ8, A6KPP7
XM_063267075.1 → XP_063123145.1 DNA-binding protein SATB1 isoform X6

UniProtKB/TrEMBL

Q5U2Y2
XM_063267072.1 → XP_063123142.1 DNA-binding protein SATB1 isoform X2

UniProtKB/TrEMBL

A0A0G2JYZ8, A6KPP7
XM_063267076.1 → XP_063123146.1 DNA-binding protein SATB1 isoform X6

UniProtKB/TrEMBL

Q5U2Y2
XM_063267070.1 → XP_063123140.1 DNA-binding protein SATB1 isoform X2

UniProtKB/TrEMBL

A0A0G2JYZ8, A6KPP7
XM_063267068.1 → XP_063123138.1 DNA-binding protein SATB1 isoform X1
XM_063267077.1 → XP_063123147.1 DNA-binding protein SATB1 isoform X6

UniProtKB/TrEMBL

Q5U2Y2
XM_063267071.1 → XP_063123141.1 DNA-binding protein SATB1 isoform X2

UniProtKB/TrEMBL

A0A0G2JYZ8, A6KPP7
XM_039083476.2 → XP_038939404.1 DNA-binding protein SATB1 isoform X1

Conserved Domains (4) summary

smart00389
Location:678 → 735

HOX; Homeodomain

pfam02376
Location:497 → 567

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_063267080.1 → XP_063123150.1 DNA-binding protein SATB1 isoform X6

UniProtKB/TrEMBL

Q5U2Y2
XM_063267078.1 → XP_063123148.1 DNA-binding protein SATB1 isoform X6

UniProtKB/TrEMBL

Q5U2Y2
XM_063267073.1 → XP_063123143.1 DNA-binding protein SATB1 isoform X2

UniProtKB/TrEMBL

A0A0G2JYZ8, A6KPP7
XM_039083478.2 → XP_038939406.1 DNA-binding protein SATB1 isoform X1

Conserved Domains (4) summary

smart00389
Location:678 → 735

HOX; Homeodomain

pfam02376
Location:497 → 567

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_039083481.2 → XP_038939409.1 DNA-binding protein SATB1 isoform X5

UniProtKB/TrEMBL

F7ENV6

Related

ENSRNOP00000017557.4

Conserved Domains (4) summary

smart00389
Location:644 → 701

HOX; Homeodomain

pfam02376
Location:497 → 567

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_039083480.2 → XP_038939408.1 DNA-binding protein SATB1 isoform X4

Conserved Domains (4) summary

smart00389
Location:646 → 703

HOX; Homeodomain

pfam02376
Location:497 → 567

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_063267069.1 → XP_063123139.1 DNA-binding protein SATB1 isoform X3
XM_006244219.4 → XP_006244281.1 DNA-binding protein SATB1 isoform X2

See identical proteins and their annotated locations for XP_006244281.1

UniProtKB/TrEMBL

A0A0G2JYZ8, A6KPP7

Related

ENSRNOP00000070853.2

Conserved Domains (4) summary

smart00389
Location:677 → 734

HOX; Homeodomain

pfam02376
Location:494 → 566

CUT; CUT domain

pfam16534
Location:72 → 170

ULD; Ubiquitin-like oligomerization domain of SATB

pfam16557
Location:200 → 247

CUTL; CUT1-like DNA-binding domain of SATB
XM_039083475.2 → XP_038939403.1 DNA-binding protein SATB1 isoform X1

Conserved Domains (4) summary

smart00389
Location:678 → 735

HOX; Homeodomain

pfam02376
Location:497 → 567

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_039083479.1 → XP_038939407.1 DNA-binding protein SATB1 isoform X1

Conserved Domains (4) summary

smart00389
Location:678 → 735

HOX; Homeodomain

pfam02376
Location:497 → 567

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