Slc49a4 MGI Mouse Gene Detail - MGI:2387188 - solute carrier family 49 member 4

Symbol

Slc49a4
Name

solute carrier family 49 member 4
Synonyms

Dirc2, MGC:47126, RCC4

Feature Type

protein coding gene
IDs

MGI:2387188
NCBI Gene: 224132
Alliance

gene page
Transcription Start Sites

6 TSS

Sequence Map

Chr16:35514432-35589726 bp, - strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 16, 25.43 cM
Mapping Data

2 experiments

SNPs within 2kb

2573 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2387188	protein coding gene	Chr16:35514432-35589740 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0022770	protein coding gene	Chr16:34028325-34106185 (-)
A/J	MGP_AJ_G0022735	protein coding gene	Chr16:32374881-32449906 (-)
AKR/J	MGP_AKRJ_G0022708	protein coding gene	Chr16:33500177-33585647 (-)
BALB/cJ	MGP_BALBcJ_G0022737	protein coding gene	Chr16:32503468-32578247 (-)
C3H/HeJ	MGP_C3HHeJ_G0022502	protein coding gene	Chr16:33645946-33723435 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0023186	protein coding gene	Chr16:34758247-34841782 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0020704	protein coding gene	Chr16:32736102-32816816 (-)
CAST/EiJ	MGP_CASTEiJ_G0022030	protein coding gene	Chr16:33860043-33943075 (-)
CBA/J	MGP_CBAJ_G0022472	protein coding gene	Chr16:36167263-36251675 (-)
DBA/2J	MGP_DBA2J_G0022605	protein coding gene	Chr16:32201631-32277469 (-)
FVB/NJ	MGP_FVBNJ_G0022580	protein coding gene	Chr16:32204173-32279240 (-)
LP/J	MGP_LPJ_G0022672	protein coding gene	Chr16:33760551-33841184 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0022599	protein coding gene	Chr16:35460221-35535999 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0023198	protein coding gene	Chr16:33571056-33650231 (-)
PWK/PhJ	MGP_PWKPhJ_G0021771	protein coding gene	Chr16:32601177-32678836 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0021602	protein coding gene	Chr16:33356587-33443957 (-)
WSB/EiJ	MGP_WSBEiJ_G0022074	protein coding gene	Chr16:33495239-33573230 (-)

Human Ortholog

SLC49A4, solute carrier family 49 member 4

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

SLC49A4, solute carrier family 49 member 4
Synonyms

DIRC2, RCC4
Links

HGNC:16628

NCBI Gene ID: 84925

neXtProt AC: NX_Q96SL1

UniProt: Q96SL1
Chr Location

3q21.1; chr3:122795069-122881139 (+) GRCh38

MGI Vertebrate Homology

Slc49a4 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: SLC49A4
Gene Tree

Slc49a4

Diseases

1 with human SLC49A4 associations

				Human Disease	Mouse Models
				renal cell carcinoma IDs renal cell carcinoma DOID:4450 EFO:0000681 MESH:D002292 NCI:C9385 OMIM:300854 ORDO:217071 UMLS_CUI:C0007134

Click on a disease name to see all genes associated with that disease.

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Phenotype Summary

3 phenotypes from 1 allele in 1 genetic background
11 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

14
Endonuclease-mediated

1
Gene trapped

11
Targeted

2
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

50 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

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All GO Annotations

8
GO References

3

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

706
cDNA Data

8

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase slc49a4

ZFIN slc49a4

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All Sequences

42
RefSeq

2
UniProt

2
CCDS

CCDS28141.1

Ensembl

ENSMUSG00000022848 (Evidence)
NCBI Gene

224132

			Length	Strain/Species	Flank
genomic	ENSMUSG00000022848	Ensembl Gene Model \| MGI Sequence Detail	75295	C57BL/6J	± kb
transcript	ENSMUST00000023554	Ensembl \| MGI Sequence Detail	5395	Not Applicable
polypeptide	ENSMUSP00000023554	Ensembl \| MGI Sequence Detail	478	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000006490 solute carrier family 49 member 4

(term hierarchy)
InterPro Domains

IPR036259 MFS transporter superfamily

IPR049680 Solute carrier family 49-like

IPR049604 Solute carrier family 49 member 4-like
GlyGen

Q8BFQ6 1 site

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All nucleic 9

cDNA 9

Microarray probesets 7

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MGI:6277093

Summaries

All 33

Gene Ontology 3

Phenotypes 11
Earliest

J:80000 The FANTOM Consortium and The RIKEN Genome Exploration Research Group Phase I & II Team, Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Nature. 2002;420:563-573
Latest

J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136

TSS for Slc49a4:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr140906	Chr16:35590600-35590625 (-)	-887 bp
Tssr140905	Chr16:35589917-35589933 (-)	-199 bp
Tssr140904	Chr16:35589866-35589904 (-)	-159 bp
Tssr140903	Chr16:35589731-35589754 (-)	-17 bp
Tssr140902	Chr16:35589698-35589718 (-)	18 bp
Tssr140901	Chr16:35589678-35589697 (-)	38 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 11/12/2024 MGI 6.24