Slc4a10 solute carrier family 4 member 10 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Slc4a10provided by RGD
Official Full Name: solute carrier family 4 member 10provided by RGD
Primary source: RGD:631407
See related: EnsemblRapid:ENSRNOG00000005307 AllianceGenome:RGD:631407
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: NCBE
Summary: Enables sodium:bicarbonate symporter activity. Predicted to be involved in several processes, including bicarbonate transport; regulation of short-term neuronal synaptic plasticity; and visual perception. Predicted to act upstream of or within several processes, including brain development; locomotory exploration behavior; and regulation of cellular pH. Located in apical plasma membrane and basolateral plasma membrane. Orthologous to human SLC4A10 (solute carrier family 4 member 10). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Restricted expression toward (RPKM 349.2) See more
Orthologs: human mouse all
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Genomic context

Location:: 3q21

Exon count:: 31

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (67050925..67367637)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (46665076..46959088)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (47995812..48287897)

Chromosome 3 - NC_086021.1 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?

a new promoter of Slc4a10 encoding NBCn2 and a novel type of Nterminus-truncated NBCn2, were identified.
Title: Effects of Nt-truncation and coexpression of isolated Nt domains on the membrane trafficking of electroneutral Na+/HCO3- cotransporters.
The study results allow concluding that Na(+) is not required for Cl(-) efflux via Cl(-)/HCO3 (-) exchanger.
Title: Sodium is not required for chloride efflux via chloride/bicarbonate exchanger from rat thymic lymphocytes.
We conclude that alternative transcription and splicing of Slc4a10 products are regulated in a tissue-specific manner. Our findings provide critical insights that will greatly influence the study of the physiology of NBCn2.
Title: Cloning and functional characterization of novel variants and tissue-specific expression of alternative amino and carboxyl termini of products of slc4a10.
slc4a10 expressed in mammalian cells encodes a Na(+)-dependent Cl(-)/HCO(3)(-) exchanger in which four specific charged amino acids seem necessary for ion transport.
Title: Na+-dependent HCO3- import by the slc4a10 gene product involves Cl- export.
SLC4A10 gene product and NBCn1 both function as basolateral HCO3- entry pathways and that the SLC4A10 gene product may be responsible for the stilbene-sensitive Na+-HCO3- uptake that is essential for cerebrospinal fluid production.
Title: A SCL4A10 gene product maps selectively to the basolateral plasma membrane of choroid plexus epithelial cells.
We identify two novel variants of the sodium-driven chloride bicarbonate exchanger from brain. The developmental expression pattern seen by in situ hybridization reveals strong expression in spinal cord and brain beginning in embryonic development.
Title: Two variants of the rat brain sodium-driven chloride bicarbonate exchanger (NCBE): developmental expression and addition of a PDZ motif.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables monoatomic anion transmembrane transporter activity	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sodium,bicarbonate:chloride antiporter activity	IDA Inferred from Direct Assay more info	PubMed
enables sodium,bicarbonate:chloride antiporter activity	IEA Inferred from Electronic Annotation more info
enables sodium,bicarbonate:chloride antiporter activity	ISO Inferred from Sequence Orthology more info
enables sodium:bicarbonate symporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables sodium:bicarbonate symporter activity	IDA Inferred from Direct Assay more info	PubMed
enables sodium:bicarbonate symporter activity	IEA Inferred from Electronic Annotation more info
enables sodium:bicarbonate symporter activity	ISO Inferred from Sequence Orthology more info
enables solute:inorganic anion antiporter activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in bicarbonate transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in bicarbonate transport	IEA Inferred from Electronic Annotation more info
involved_in brain morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within brain morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in inorganic anion transport	IEA Inferred from Electronic Annotation more info
involved_in locomotory exploration behavior	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within locomotory exploration behavior	ISO Inferred from Sequence Orthology more info
involved_in monoatomic anion transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in multicellular organism growth	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within multicellular organism growth	ISO Inferred from Sequence Orthology more info
involved_in post-embryonic development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within post-embryonic development	ISO Inferred from Sequence Orthology more info
involved_in proton transmembrane transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within proton transmembrane transport	ISO Inferred from Sequence Orthology more info
involved_in pyramidal neuron development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within pyramidal neuron development	ISO Inferred from Sequence Orthology more info
involved_in regulation of cellular pH	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of cellular pH	ISO Inferred from Sequence Orthology more info
involved_in regulation of intracellular pH	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of pH	ISO Inferred from Sequence Orthology more info
involved_in regulation of short-term neuronal synaptic plasticity	IEA Inferred from Electronic Annotation more info
involved_in regulation of short-term neuronal synaptic plasticity	ISO Inferred from Sequence Orthology more info
involved_in regulation of short-term neuronal synaptic plasticity	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to light stimulus	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within response to light stimulus	ISO Inferred from Sequence Orthology more info
involved_in sodium ion transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in visual perception	IEA Inferred from Electronic Annotation more info
involved_in visual perception	ISO Inferred from Sequence Orthology more info
involved_in visual perception	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in CA3 pyramidal cell dendrite	IEA Inferred from Electronic Annotation more info
located_in CA3 pyramidal cell dendrite	ISO Inferred from Sequence Orthology more info
located_in apical dendrite	IEA Inferred from Electronic Annotation more info
located_in apical dendrite	ISO Inferred from Sequence Orthology more info
located_in apical plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in axon terminus	IEA Inferred from Electronic Annotation more info
located_in axon terminus	ISO Inferred from Sequence Orthology more info
located_in axon terminus	ISS Inferred from Sequence or Structural Similarity more info
located_in basal dendrite	IEA Inferred from Electronic Annotation more info
located_in basal dendrite	ISO Inferred from Sequence Orthology more info
is_active_in basolateral plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in basolateral plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in basolateral plasma membrane	IEA Inferred from Electronic Annotation more info
located_in basolateral plasma membrane	ISO Inferred from Sequence Orthology more info
located_in basolateral plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in dendrite	ISO Inferred from Sequence Orthology more info
located_in dendrite	ISS Inferred from Sequence or Structural Similarity more info
located_in lateral plasma membrane	IEA Inferred from Electronic Annotation more info
located_in neuronal cell body	IEA Inferred from Electronic Annotation more info
located_in neuronal cell body	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	ISS Inferred from Sequence or Structural Similarity more info
located_in perikaryon	IEA Inferred from Electronic Annotation more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in postsynapse	IEA Inferred from Electronic Annotation more info
located_in somatodendritic compartment	ISO Inferred from Sequence Orthology more info
located_in somatodendritic compartment	ISS Inferred from Sequence or Structural Similarity more info
located_in synapse	ISO Inferred from Sequence Orthology more info
located_in synapse	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: sodium-driven chloride bicarbonate exchanger

Names: Na+ bicarbonate transporter NBCn2-G; Na-bicarbonate cotransporter NBCn2-O; solute carrier family 4, sodium bicarbonate transporter, member 10; solute carrier family 4, sodium bicarbonate transporter-like, member 10

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_001429835.1 → NP_001416764.1 sodium-driven chloride bicarbonate exchanger isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A0A8I6GM66
NM_001429836.1 → NP_001416765.1 sodium-driven chloride bicarbonate exchanger isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A0A8L2QND6
NM_001429837.1 → NP_001416766.1 sodium-driven chloride bicarbonate exchanger isoform 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A0A8I6GM66
NM_178092.3 → NP_835193.1 sodium-driven chloride bicarbonate exchanger isoform 4

See identical proteins and their annotated locations for NP_835193.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/Swiss-Prot

A0A0G2JYF0, A0A2L1K0J5, D3ZGB5, D3ZY00, D4ADV4, J7FMV4, J7FPF5, J7FRI2, J7FTX0, Q6PU70, Q6PU71, Q6PU72, Q6PU73, Q6PU74, Q80ZA5, Q80ZA6

UniProtKB/TrEMBL

A0A8I6GM66

Related

ENSRNOP00000007218.8, ENSRNOT00000007218.9

Conserved Domains (3) summary

TIGR00834
Location:118 → 1060

ae; anion exchange protein

pfam00955
Location:475 → 988

HCO3_cotransp; HCO3- transporter family

pfam07565
Location:146 → 434

Band_3_cyto; Band 3 cytoplasmic domain

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_086021.1 Reference GRCr8

Range

67050925..67367637

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063283270.1 → XP_063139340.1 sodium-driven chloride bicarbonate exchanger isoform X10

UniProtKB/TrEMBL

A0A8I6A5G1, W0NXI0

Related

ENSRNOP00000059155.3, ENSRNOT00000067545.6
XM_006234283.5 → XP_006234345.1 sodium-driven chloride bicarbonate exchanger isoform X9

See identical proteins and their annotated locations for XP_006234345.1

UniProtKB/TrEMBL

A0A8I6GM66

Conserved Domains (3) summary

TIGR00834
Location:118 → 1030

ae; anion exchange protein

pfam00955
Location:445 → 958

HCO3_cotransp; HCO3- transporter family

pfam07565
Location:146 → 404

Band_3_cyto; Band 3 cytoplasmic domain
XM_006234277.5 → XP_006234339.1 sodium-driven chloride bicarbonate exchanger isoform X2

Related

ENSRNOP00000071402.2, ENSRNOT00000087711.3

Conserved Domains (3) summary

TIGR00834
Location:118 → 1061

ae; anion exchange protein

pfam00955
Location:476 → 989

HCO3_cotransp; HCO3- transporter family

pfam07565
Location:146 → 435

Band_3_cyto; Band 3 cytoplasmic domain
XM_006234282.5 → XP_006234344.1 sodium-driven chloride bicarbonate exchanger isoform X8

Conserved Domains (3) summary

TIGR00834
Location:118 → 1031

ae; anion exchange protein

pfam00955
Location:446 → 959

HCO3_cotransp; HCO3- transporter family

pfam07565
Location:146 → 405

Band_3_cyto; Band 3 cytoplasmic domain
XM_063283269.1 → XP_063139339.1 sodium-driven chloride bicarbonate exchanger isoform X3

UniProtKB/TrEMBL

A0A8I6GM66
XM_006234275.5 → XP_006234337.1 sodium-driven chloride bicarbonate exchanger isoform X4

UniProtKB/TrEMBL

A0A8L2QND6

Conserved Domains (3) summary

TIGR00834
Location:130 → 1073

ae; anion exchange protein

pfam00955
Location:488 → 1001

HCO3_cotransp; HCO3- transporter family

pfam07565
Location:158 → 447

Band_3_cyto; Band 3 cytoplasmic domain
XM_063283271.1 → XP_063139341.1 sodium-driven chloride bicarbonate exchanger isoform X12

Related

ENSRNOP00000086142.2, ENSRNOT00000104570.2
XM_039104485.2 → XP_038960413.1 sodium-driven chloride bicarbonate exchanger isoform X11

UniProtKB/TrEMBL

A6HLV1

Conserved Domains (1) summary

cl26877
Location:130 → 859

Band_3_cyto; Band 3 cytoplasmic domain
XM_006234276.5 → XP_006234338.1 sodium-driven chloride bicarbonate exchanger isoform X1

Conserved Domains (3) summary

TIGR00834
Location:130 → 1072

ae; anion exchange protein

pfam00955
Location:487 → 1000

HCO3_cotransp; HCO3- transporter family

pfam07565
Location:158 → 446

Band_3_cyto; Band 3 cytoplasmic domain
XM_017591546.3 → XP_017447035.1 sodium-driven chloride bicarbonate exchanger isoform X7

UniProtKB/TrEMBL

A0A097PID6, A0A8L2QND6

Conserved Domains (3) summary

TIGR00834
Location:130 → 1042

ae; anion exchange protein

pfam00955
Location:457 → 970

HCO3_cotransp; HCO3- transporter family

pfam07565
Location:158 → 416

Band_3_cyto; Band 3 cytoplasmic domain
XM_006234280.5 → XP_006234342.1 sodium-driven chloride bicarbonate exchanger isoform X6

See identical proteins and their annotated locations for XP_006234342.1

UniProtKB/TrEMBL

A0A8L2QND6

Related

ENSRNOP00000059915.4, ENSRNOT00000064344.6

Conserved Domains (3) summary

TIGR00834
Location:130 → 1043

ae; anion exchange protein

pfam00955
Location:458 → 971

HCO3_cotransp; HCO3- transporter family

pfam07565
Location:158 → 417

Band_3_cyto; Band 3 cytoplasmic domain
XM_017591545.3 → XP_017447034.1 sodium-driven chloride bicarbonate exchanger isoform X5

UniProtKB/TrEMBL

D4AD03

Related

ENSRNOP00000062481.3, ENSRNOT00000068238.4