Rbp4 (retinol binding protein 4) - Rat Genome Database

Name: Rbp4
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Rbp4 (retinol binding protein 4) Ictidomys tridecemlineatus

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Symbol:

Rbp4

Name:

retinol binding protein 4

RGD ID:

12507916

Description:

ENCODES a protein that exhibits protein-containing complex binding (ortholog); retinol binding (ortholog); INVOLVED IN cardiac muscle tissue development (ortholog); detection of light stimulus involved in visual perception (ortholog); embryonic organ morphogenesis (ortholog); PARTICIPATES IN retinoic acid metabolic pathway; ASSOCIATED WITH Acute Coronary Syndrome (ortholog); acute pyelonephritis (ortholog); Alcoholic Liver Diseases (ortholog); FOUND IN extracellular region (ortholog); extracellular space (ortholog); protein-containing complex (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

retinol-binding protein 4

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024407213	39,768,612 - 39,777,592 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936601	1,402,691 - 1,410,208 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936601	1,401,215 - 1,410,195 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Acute Coronary Syndrome (ISO)

acute pyelonephritis (ISO)

Alcoholic Liver Diseases (ISO)

Animal Mammary Neoplasms (ISO)

Anophthalmia (ISO)

anterior segment dysgenesis (ISO)

aortic disease (ISO)

Arteriovenous Fistula (ISO)

atherosclerosis (ISO)

Breast Neoplasms (ISO)

carcinoma (ISO)

Cardiomegaly (ISO)

Carotid Atherosclerosis (ISO)

cerebral infarction (ISO)

chronic kidney disease (ISO)

coloboma (ISO)

colon adenoma (ISO)

congestive heart failure (ISO)

coronary artery disease (ISO)

Coronary Disease (ISO)

diabetic angiopathy (ISO)

Diabetic Nephropathies (ISO)

diabetic retinopathy (ISO)

dilated cardiomyopathy (ISO)

Dyslipidemias (ISO)

essential hypertension (ISO)

Experimental Liver Cirrhosis (ISO)

Experimental Mammary Neoplasms (ISO)

Eye Abnormalities (ISO)

familial hypercholesterolemia (ISO)

familial temporal lobe epilepsy 1 (ISO)

gallbladder cancer (ISO)

genetic disease (ISO)

gestational diabetes (ISO)

hyperinsulinism (ISO)

hypertension (ISO)

Hypertriglyceridemia (ISO)

Insulin Resistance (ISO)

Jaundice (ISO)

keratomalacia (ISO)

kidney disease (ISO)

liver cirrhosis (ISO)

Metabolic Syndrome (ISO)

microphthalmia (ISO)

Microphthalmia/Coloboma 10 (ISO)

myocardial infarction (ISO)

Necrosis (ISO)

obesity (ISO)

Pediatric Obesity (ISO)

polycystic ovary syndrome (ISO)

pre-eclampsia (ISO)

Pregnancy-Induced Hypertension (ISO)

Prehypertension (ISO)

proliferative diabetic retinopathy (ISO)

psoriasis (ISO)

Retinal Dystrophy, Iris Coloboma, and Comedogenic Acne Syndrome (ISO)

severe pre-eclampsia (ISO)

Spontaneous Abortions (ISO)

Stable Angina (ISO)

Stomach Neoplasms (ISO)

systemic scleroderma (ISO)

type 2 diabetes mellitus (ISO)

Vision Disorders (ISO)

Vitamin A Deficiency (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cardiac muscle tissue development (ISO)

detection of light stimulus involved in visual perception (ISO)

embryonic organ morphogenesis (ISO)

embryonic retina morphogenesis in camera-type eye (ISO)

embryonic skeletal system development (ISO)

eye development (IEA)

female genitalia morphogenesis (ISO)

gluconeogenesis (IEA)

glucose homeostasis (IEA)

heart development (ISO)

heart trabecula formation (ISO)

lung development (ISO)

maintenance of gastrointestinal epithelium (IEA)

male gonad development (ISO)

negative regulation of cardiac muscle cell proliferation (ISO)

phototransduction, visible light (ISO)

positive regulation of immunoglobulin production (ISO)

positive regulation of insulin secretion (IEA)

response to ethanol (ISO)

response to insulin (ISO)

response to muscle activity (ISO)

response to retinoic acid (IEA)

response to xenobiotic stimulus (ISO)

retina development in camera-type eye (ISO)

retinal metabolic process (ISO)

retinoid metabolic process (ISO)

retinol metabolic process (IEA,ISO)

retinol transport (IEA,ISO)

spermatogenesis (ISO)

urinary bladder development (ISO)

uterus development (ISO)

vagina development (ISO)

vitamin A import into cell (ISO)

Cellular Component

extracellular region (IEA,ISO)

extracellular space (IEA,ISO)

protein-containing complex (ISO)

Molecular Function

protein binding (ISO)

protein-containing complex binding (ISO)

retinal binding (IEA)

retinoid binding (IEA)

retinol binding (IEA,ISO)

retinol transmembrane transporter activity (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

retinoic acid metabolic pathway (ISO)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Rbp4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024407213	39,768,612 - 39,777,592 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936601	1,402,691 - 1,410,208 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936601	1,401,215 - 1,410,195 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

RBP4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	10	93,591,694 - 93,601,744 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	10	93,591,687 - 93,601,744 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	10	95,351,451 - 95,361,501 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	10	95,341,583 - 95,350,983 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	10	95,341,583 - 95,350,983	NCBI
Celera	10	89,092,718 - 89,102,118 (-)	NCBI		Celera
Cytogenetic Map	10	q23.33	NCBI
HuRef	10	88,979,353 - 88,988,753 (-)	NCBI		HuRef
CHM1_1	10	95,634,147 - 95,643,547 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	10	94,471,646 - 94,481,695 (-)	NCBI		T2T-CHM13v2.0

Rbp4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	19	38,105,068 - 38,113,769 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	19	38,105,077 - 38,113,729 (-)	Ensembl		GRCm39 Ensembl
GRCm38	19	38,116,620 - 38,125,321 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	19	38,116,629 - 38,125,281 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	19	38,191,110 - 38,199,811 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	19	38,181,773 - 38,190,392 (-)	NCBI		MGSCv36	mm8
Celera	19	38,908,311 - 38,919,212 (-)	NCBI		Celera
Cytogenetic Map	19	C2	NCBI
cM Map	19	32.75	NCBI

Rbp4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	245,306,349 - 245,313,551 (-)	NCBI		GRCr8
mRatBN7.2	1	235,893,917 - 235,901,315 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	235,893,917 - 235,901,399 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	244,315,318 - 244,322,517 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	251,211,097 - 251,218,299 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	244,049,331 - 244,056,533 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	256,806,476 - 256,813,678 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	256,806,472 - 256,813,711 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	264,286,998 - 264,294,396 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	242,443,795 - 242,450,997 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	1	242,637,193 - 242,644,147 (-)	NCBI
Celera	1	232,987,269 - 232,994,470 (-)	NCBI		Celera
RH 3.4 Map	1	1581.5	RGD
Cytogenetic Map	1	q53	NCBI

Rbp4
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955507	108,669 - 120,584 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955507	112,342 - 120,050 (-)	NCBI	ChiLan1.0	ChiLan1.0

RBP4
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	8	105,629,725 - 105,639,359 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	10	105,635,040 - 105,644,675 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	10	90,337,879 - 90,347,530 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	10	93,848,166 - 93,857,679 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	10	93,848,166 - 93,857,887 (-)	Ensembl	panpan1.1		panPan2

RBP4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	28	7,822,936 - 7,830,735 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	28	7,822,944 - 7,830,750 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	28	7,999,367 - 8,007,133 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	28	8,083,216 - 8,090,965 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	28	8,083,226 - 8,090,980 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	28	7,802,939 - 7,810,708 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	28	7,832,158 - 7,839,906 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	28	8,002,083 - 8,009,832 (-)	NCBI		UU_Cfam_GSD_1.0

RBP4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	14	105,037,464 - 105,044,765 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	105,037,360 - 105,044,552 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	114,769,053 - 114,775,781 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

RBP4
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	9	86,831,042 - 86,840,668 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	9	86,830,957 - 86,840,250 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666048	47,606,135 - 47,615,805 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Rbp4
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624737	4,791,628 - 4,800,989 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624737	4,795,054 - 4,800,830 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005333762	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010002273	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSSTOT00000016097 ⟹ ENSSTOP00000014409

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936601	1,402,691 - 1,410,208 (+)	Ensembl

RefSeq Acc Id:

XM_005333762 ⟹ XP_005333819

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024407213	39,768,612 - 39,777,592 (+)	NCBI
SpeTri2.0	NW_004936601	1,401,215 - 1,410,195 (+)	NCBI

Sequence:

show sequence

ATGGAGACTCAGCTGATATTTTATGAAAGGAATCTTAAGAAATTTCTTTGCCATATCACCAATT
CTCATTCAGCCAAAATCTTGATTGCTTTGTTCTCCGGGACCTGGTACGCCATAGCCAAGAAGGA
CCCTGAAGGTCTCTTTCTGCAAGACAACATCGTCGCCGAATTCTCCGTGGATGAGAATGGCCAC
ATGAGTGCCACTGCCAAGGGACGTGTTCGCCTTTTGAGTAACTGGGAAGTGTGTGCAGACATGG
TGGGCACCTTCACTGACACAGAAGACCCTGCCAAGTTCAAGATGAAGTACTGGGGCGTAGCCTC
CTTTCTCCAGAGAGGAATTGATGACCACTGGATCATCGACACGGACTACCACACGTTCGCCCTG
CAGTACTCCTGCCGCCTCCTCAACTTTGATGGCACCTGTGCAGACAGCTACTCTTTTGTGTTTG
CACGTGATCCCAATGGCCTGACCCCCGAGATACGGAAGCTGGTGAGGCAGCGGCAGGAGGAGCT
GTGCCTGGACCGGCAGTACCGGTGGATTGAGCACAACGGTTACTGCCACAGCAAAACAGAAAAC
CTTTTGTAGCAACATCAAGGACATAAAAGTTTCATTTGAAAATTTCTGATTAACTTTCAATCTT
CACCTCTATTTATCTTAGGAGTTTAGCTTGTCTCCACTCCCGTCCCCCCCCTGCCCCTCGAATC
CCCTTGCCTTCCCTTGGTGAACATAAAACATCATTGCACATCAAAATCCACGTAGGAATGAGTG
AATCTGCATCACTGTGGATCTTATGGAAGTTTCCTGAGACTTGGAATTCCAAACTTTGATTTAT
TAAAATATAGCTATCAGCTTCCTA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005333819	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000014409.3
GenBank Protein	KAG3264478	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	XP_005333819 ⟸ XM_005333762
- UniProtKB:	I3MQX1 (UniProtKB/TrEMBL)
- Sequence:	show sequence METQLIFYERNLKKFLCHITNSHSAKILIALFSGTWYAIAKKDPEGLFLQDNIVAEFSVDENGH MSATAKGRVRLLSNWEVCADMVGTFTDTEDPAKFKMKYWGVASFLQRGIDDHWIIDTDYHTFAL QYSCRLLNFDGTCADSYSFVFARDPNGLTPEIRKLVRQRQEELCLDRQYRWIEHNGYCHSKTEN LL hide sequence

Ensembl Acc Id:

ENSSTOP00000014409 ⟸ ENSSTOT00000016097

Protein Domains

Lipocalin/cytosolic fatty-acid binding

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000016094	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000016097.3	UniProtKB/TrEMBL
Gene3D-CATH	2.40.128.20	UniProtKB/TrEMBL
InterPro	Calycin	UniProtKB/TrEMBL
	Lipocalin_ApoD	UniProtKB/TrEMBL
	Lipocln_cytosolic_FA-bd_dom	UniProtKB/TrEMBL
	Retinol-bd/Purpurin	UniProtKB/TrEMBL
NCBI Gene	Rbp4	ENTREZGENE
PANTHER	PTHR11873	UniProtKB/TrEMBL
	RETINOL-BINDING PROTEIN 4	UniProtKB/TrEMBL
Pfam	Lipocalin	UniProtKB/TrEMBL
PIRSF	Lipocalin_ApoD	UniProtKB/TrEMBL
PRINTS	RETINOLBNDNG	UniProtKB/TrEMBL
Superfamily-SCOP	SSF50814	UniProtKB/TrEMBL
UniProt	I3MQX1	ENTREZGENE, UniProtKB/TrEMBL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

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