Slc11a1 solute carrier family 11 member 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Slc11a1provided by RGD
Official Full Name: solute carrier family 11 member 1provided by RGD
Primary source: RGD:1601463
See related: Ensembl:ENSRNOG00000014956 AllianceGenome:RGD:1601463
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
Also known as: Bcg; Itg; Lsh; Nramp1
Summary: Predicted to enable metal ion transmembrane transporter activity and protein homodimerization activity. Predicted to be involved in cellular transition metal ion homeostasis; metal ion transport; and response to lipopolysaccharide. Predicted to act upstream of or within several processes, including cation transport; defense response to other organism; and positive regulation of macromolecule metabolic process. Predicted to be located in cytoplasmic vesicle and lysosome. Predicted to be active in phagocytic vesicle membrane and plasma membrane. Human ortholog(s) of this gene implicated in several diseases, including Buruli ulcer disease; autoimmune disease (multiple); inflammatory bowel disease (multiple); leishmaniasis (multiple); and tuberculosis (multiple). Orthologous to human SLC11A1 (solute carrier family 11 member 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Spleen (RPKM 140.4), Liver (RPKM 42.5) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 9q33

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (83406327..83417252)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (75957193..75968115)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (81655590..81666697)

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?

Submit: New GeneRIF Correction

General gene information

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Markers

D9Got99 (e-PCR)
- UniSTS:113321

Slc11a1 (e-PCR), detects polymorphism
- UniSTS:546991

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables cadmium ion transmembrane transporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables iron ion transmembrane transporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables iron ion transmembrane transporter activity	IEA Inferred from Electronic Annotation more info
enables iron ion transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables iron ion transmembrane transporter activity	ISS Inferred from Sequence or Structural Similarity more info
enables manganese ion transmembrane transporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables manganese ion transmembrane transporter activity	IEA Inferred from Electronic Annotation more info
enables manganese ion transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables manganese ion transmembrane transporter activity	ISS Inferred from Sequence or Structural Similarity more info
enables metal cation:proton antiporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables metal cation:proton antiporter activity	IEA Inferred from Electronic Annotation more info
enables metal cation:proton antiporter activity	ISO Inferred from Sequence Orthology more info
enables metal cation:proton antiporter activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein homodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables transition metal ion transmembrane transporter activity	IEA Inferred from Electronic Annotation more info
enables transition metal ion transmembrane transporter activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in L-arginine transmembrane transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within L-arginine transmembrane transport	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within MAPK cascade	ISO Inferred from Sequence Orthology more info
involved_in MHC class II biosynthetic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within MHC class II biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in T cell proliferation involved in immune response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within T cell proliferation involved in immune response	ISO Inferred from Sequence Orthology more info
involved_in antigen processing and presentation of peptide antigen	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within antigen processing and presentation of peptide antigen	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
involved_in cadmium ion transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in cadmium ion transmembrane transport	ISO Inferred from Sequence Orthology more info
involved_in cellular detoxification of cadmium ion	IEA Inferred from Electronic Annotation more info
involved_in cellular detoxification of cadmium ion	ISO Inferred from Sequence Orthology more info
involved_in defense response to Gram-negative bacterium	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within defense response to Gram-negative bacterium	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within defense response to bacterium	ISO Inferred from Sequence Orthology more info
involved_in defense response to protozoan	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within defense response to protozoan	ISO Inferred from Sequence Orthology more info
involved_in establishment of localization in cell	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within establishment of localization in cell	ISO Inferred from Sequence Orthology more info
involved_in inflammatory response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in intracellular iron ion homeostasis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within intracellular iron ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in intracellular iron ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in iron ion transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in iron ion transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in iron ion transport	IEA Inferred from Electronic Annotation more info
involved_in iron ion transport	ISO Inferred from Sequence Orthology more info
involved_in iron ion transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in mRNA stabilization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mRNA stabilization	ISO Inferred from Sequence Orthology more info
involved_in macrophage activation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within macrophage activation	ISO Inferred from Sequence Orthology more info
involved_in manganese ion transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in manganese ion transport	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within manganese ion transport	ISO Inferred from Sequence Orthology more info
involved_in manganese ion transport	ISO Inferred from Sequence Orthology more info
involved_in manganese ion transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in metal ion transport	ISO Inferred from Sequence Orthology more info
involved_in multicellular organismal-level iron ion homeostasis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within multicellular organismal-level iron ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cytokine production	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of cytokine production	ISO Inferred from Sequence Orthology more info
involved_in nitrite transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within nitrite transport	ISO Inferred from Sequence Orthology more info
involved_in phagocytosis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within phagocytosis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of T-helper 1 type immune response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of T-helper 1 type immune response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of cytokine production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of dendritic cell antigen processing and presentation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of dendritic cell antigen processing and presentation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of phagocytosis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of phagocytosis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of type II interferon production	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of type II interferon production	ISO Inferred from Sequence Orthology more info
involved_in proton transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in respiratory burst	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within respiratory burst	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to bacterium	ISO Inferred from Sequence Orthology more info
involved_in response to bacterium	ISO Inferred from Sequence Orthology more info
involved_in response to lipopolysaccharide	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within response to lipopolysaccharide	ISO Inferred from Sequence Orthology more info
involved_in response to type II interferon	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within response to type II interferon	ISO Inferred from Sequence Orthology more info
involved_in vacuolar acidification	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within vacuolar acidification	ISO Inferred from Sequence Orthology more info
involved_in wound healing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within wound healing	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in endosome membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in endosome membrane	ISO Inferred from Sequence Orthology more info
located_in late endosome	ISO Inferred from Sequence Orthology more info
located_in late endosome membrane	IEA Inferred from Electronic Annotation more info
located_in late endosome membrane	ISO Inferred from Sequence Orthology more info
is_active_in lysosomal membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in lysosomal membrane	IEA Inferred from Electronic Annotation more info
located_in lysosomal membrane	ISO Inferred from Sequence Orthology more info
located_in lysosome	ISO Inferred from Sequence Orthology more info
is_active_in phagocytic vesicle membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in phagocytic vesicle membrane	IEA Inferred from Electronic Annotation more info
located_in phagocytic vesicle membrane	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in tertiary granule membrane	IEA Inferred from Electronic Annotation more info
located_in tertiary granule membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: natural resistance-associated macrophage protein 1

Names: NRAMP 1; solute carrier family 11 (proton-coupled divalent metal ion transporter), member 1; solute carrier family 11 (proton-coupled divalent metal ion transporters), member 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_001031658.1 → NP_001026828.1 natural resistance-associated macrophage protein 1

See identical proteins and their annotated locations for NP_001026828.1

Status: PROVISIONAL

Source sequence(s)

BC100653

UniProtKB/Swiss-Prot

P70553, Q496Z6

UniProtKB/TrEMBL

F1LSN8

Related

ENSRNOP00000054282.2, ENSRNOT00000057472.4

Conserved Domains (2) summary

TIGR01197
Location:48 → 412

nramp; NRAMP (natural resistance-associated macrophage protein) metal ion transporters

pfam01566
Location:47 → 419

Nramp; Natural resistance-associated macrophage protein

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

83406327..83417252

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006245219.5 → XP_006245281.1 natural resistance-associated macrophage protein 1 isoform X1

UniProtKB/TrEMBL

A0A8I6A4H2

Related

ENSRNOP00000088138.1

Conserved Domains (2) summary

TIGR01197
Location:54 → 454

nramp; NRAMP (natural resistance-associated macrophage protein) metal ion transporters

pfam01566
Location:76 → 461

Nramp; Natural resistance-associated macrophage protein
XM_006245220.3 → XP_006245282.1 natural resistance-associated macrophage protein 1 isoform X2

See identical proteins and their annotated locations for XP_006245282.1

UniProtKB/TrEMBL

A0A0G2JZT3, A0A8I6A4H2, A6JVU4

Related

ENSRNOP00000071174.1

Conserved Domains (2) summary

TIGR01197
Location:53 → 453

nramp; NRAMP (natural resistance-associated macrophage protein) metal ion transporters

pfam01566
Location:75 → 460

Nramp; Natural resistance-associated macrophage protein
XM_039083672.2 → XP_038939600.1 natural resistance-associated macrophage protein 1 isoform X3

Conserved Domains (1) summary

cl00456
Location:1 → 251

SLC5-6-like_sbd; Solute carrier families 5 and 6-like; solute binding domain