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Slc4a7 solute carrier family 4 member 7 [ Rattus norvegicus (Norway rat) ]

Gene ID: 117955, updated on 13-Aug-2020

Summary

Official Symbol
Slc4a7provided by RGD
Official Full Name
solute carrier family 4 member 7provided by RGD
Primary source
RGD:621208
See related
Ensembl:ENSRNOG00000005957
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
NBC3; NBCn1
Summary
regulates intracellular pH in different cells along with Na+-driven HCO3- transporters, the Na+-driven Cl-/HCO3- exchanger [RGD, Feb 2006]
Expression
Biased expression in Spleen (RPKM 165.8), Thymus (RPKM 78.4) and 9 other tissues See more
Orthologs

Genomic context

See Slc4a7 in Genome Data Viewer
Location:
15p16
Exon count:
28
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (11832611..11912923, complement)
106 current Rn_Celera (GCF_000002265.2) 15 AC_000083.1 (10601042..10672302, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 15 NC_005114.3 (15871621..15950530, complement)

Chromosome 15 - NC_005114.4Genomic Context describing neighboring genes Neighboring gene similar to transcription elongation factor A 1 isoform 2 Neighboring gene NIMA-related kinase 10 Neighboring gene acanthoscurrin-2-like Neighboring gene uncharacterized LOC108352887 Neighboring gene apolipoprotein O-like Neighboring gene olfactory receptor 1605

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
inorganic anion exchanger activity IEA
Inferred from Electronic Annotation
more info
 
sodium:bicarbonate symporter activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
transmembrane transporter activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
anion transmembrane transport IEA
Inferred from Electronic Annotation
more info
 
auditory receptor cell development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
auditory receptor cell development ISO
Inferred from Sequence Orthology
more info
 
bicarbonate transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
camera-type eye photoreceptor cell differentiation ISO
Inferred from Sequence Orthology
more info
 
cochlear nucleus development ISO
Inferred from Sequence Orthology
more info
 
inorganic anion transport IEA
Inferred from Electronic Annotation
more info
 
ion homeostasis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of intracellular pH IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
retina vasculature morphogenesis in camera-type eye ISO
Inferred from Sequence Orthology
more info
 
retinal cell programmed cell death ISO
Inferred from Sequence Orthology
more info
 
sodium ion transmembrane transport IEA
Inferred from Electronic Annotation
more info
 
transmembrane transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
visual perception ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
apical plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
apical plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
apical plasma membrane ISO
Inferred from Sequence Orthology
more info
 
basolateral plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
basolateral plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
basolateral plasma membrane ISO
Inferred from Sequence Orthology
more info
 
cytoplasm ISO
Inferred from Sequence Orthology
more info
 
cytoplasmic vesicle IDA
Inferred from Direct Assay
more info
PubMed 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
membrane ISO
Inferred from Sequence Orthology
more info
 
plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
plasma membrane ISO
Inferred from Sequence Orthology
more info
 
stereocilium IDA
Inferred from Direct Assay
more info
PubMed 
synapse IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
sodium bicarbonate cotransporter 3
Names
NBC-like protein
electroneutral sodium bicarbonate cotransporter 1
solute carrier family 4 sodium bicarbonate cotransporter member 7 variant NBCn1-G
solute carrier family 4 sodium bicarbonate cotransporter member 7 variant NBCn1-I
solute carrier family 4 sodium bicarbonate cotransporter member 7 variant NBCn1-J
solute carrier family 4, sodium bicarbonate cotransporter, member 7

NCBI Reference Sequences (RefSeq)

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_001270860.1NP_001257789.1  sodium bicarbonate cotransporter 3 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice junction at the 3' end of an exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AABR07017112, AABR07017113
    Conserved Domains (3) summary
    TIGR00834
    Location:1181126
    ae; anion exchange protein
    pfam00955
    Location:5661079
    HCO3_cotransp; HCO3- transporter family
    pfam07565
    Location:146523
    Band_3_cyto; Band 3 cytoplasmic domain
  2. NM_001270861.1NP_001257790.1  sodium bicarbonate cotransporter 3 isoform 3

    See identical proteins and their annotated locations for NP_001257790.1

    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)
    AABR07017112, AABR07017113
    UniProtKB/Swiss-Prot
    Q9R1N3
    Related
    ENSRNOP00000047758.4, ENSRNOT00000049771.4
    Conserved Domains (3) summary
    TIGR00834
    Location:1181139
    ae; anion exchange protein
    pfam00955
    Location:5791092
    HCO3_cotransp; HCO3- transporter family
    pfam07565
    Location:146536
    Band_3_cyto; Band 3 cytoplasmic domain
  3. NM_058211.2NP_478118.1  sodium bicarbonate cotransporter 3 isoform 1

    See identical proteins and their annotated locations for NP_478118.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AABR07017112, AABR07017113
    UniProtKB/Swiss-Prot
    Q9R1N3
    Related
    ENSRNOP00000008759.6, ENSRNOT00000008759.7
    Conserved Domains (3) summary
    TIGR00834
    Location:1181139
    ae; anion exchange protein
    pfam00955
    Location:5791092
    HCO3_cotransp; HCO3- transporter family
    pfam07565
    Location:146536
    Band_3_cyto; Band 3 cytoplasmic domain

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005114.4 Reference Rnor_6.0 Primary Assembly

    Range
    11832611..11912923 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_008770482.2XP_008768704.1  sodium bicarbonate cotransporter 3 isoform X7

    UniProtKB/TrEMBL
    A0A0K0WYI6
    Conserved Domains (3) summary
    TIGR00834
    Location:1181003
    ae; anion exchange protein
    pfam00955
    Location:443956
    HCO3_cotransp; HCO3- transporter family
    pfam07565
    Location:146400
    Band_3_cyto; Band 3 cytoplasmic domain
  2. XM_008770481.2XP_008768703.1  sodium bicarbonate cotransporter 3 isoform X6

    UniProtKB/TrEMBL
    F1M0J3
    Related
    ENSRNOP00000063542.3, ENSRNOT00000068171.3
    Conserved Domains (3) summary
    TIGR00834
    Location:1181016
    ae; anion exchange protein
    pfam00955
    Location:456969
    HCO3_cotransp; HCO3- transporter family
    pfam07565
    Location:146413
    Band_3_cyto; Band 3 cytoplasmic domain
  3. XM_017599563.1XP_017455052.1  sodium bicarbonate cotransporter 3 isoform X1

  4. XM_017599565.1XP_017455054.1  sodium bicarbonate cotransporter 3 isoform X3

  5. XM_017599564.1XP_017455053.1  sodium bicarbonate cotransporter 3 isoform X2

  6. XM_017599567.1XP_017455056.1  sodium bicarbonate cotransporter 3 isoform X5

  7. XM_017599568.1XP_017455057.1  sodium bicarbonate cotransporter 3 isoform X8

  8. XM_017599566.1XP_017455055.1  sodium bicarbonate cotransporter 3 isoform X4

Alternate Rn_Celera

Genomic

  1. AC_000083.1 Alternate Rn_Celera

    Range
    10601042..10672302 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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