Apod (apolipoprotein D) - Rat Genome Database

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

	Submit Data \| Help \| Video Tutorials \| News \| Publications \| FTP Download \| REST API \| Citing RGD \| Contact
	Search RGD Grant Resources Citing RGD About Us Contact Us Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References FTP Download Submit Data OntoMate (Literature Search) JBrowse (Genome Browser) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer ACP Haplotyper Genome Scanner Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease Find Models new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive Pathways Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
	Advanced Search (OLGA)

Gene: Apod (apolipoprotein D) Ictidomys tridecemlineatus

Analyze

Symbol:

Apod

Name:

apolipoprotein D

RGD ID:

12667810

Description:

ENCODES a protein that exhibits cholesterol binding (ortholog); INVOLVED IN aging (ortholog); brain development (ortholog); glucose metabolic process (ortholog); ASSOCIATED WITH Alzheimer's disease (ortholog); Brain Injuries (ortholog); gestational diabetes (ortholog); FOUND IN cytoplasm (ortholog); cytosolic ribosome (ortholog); dendrite (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

RGD Orthologs

Human

Mouse

Rat

Chinchilla

Bonobo

Dog

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	APOD (apolipoprotein D)	NCBI	Ortholog
Mus musculus (house mouse):	Apod (apolipoprotein D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Apod (apolipoprotein D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Apod (apolipoprotein D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	APOD (apolipoprotein D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	APOD (apolipoprotein D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	APOD (apolipoprotein D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	APOD (apolipoprotein D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Apod (apolipoprotein D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

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
SpeTri2.0	NW_004936833	260,798 - 277,060 (-)	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

Alzheimer's disease (ISO)

Brain Injuries (ISO)

gestational diabetes (ISO)

high grade glioma (ISO)

Hypokinesia (ISO)

learning disability (ISO)

neurodegenerative disease (ISO)

obesity (ISO)

status epilepticus (ISO)

Stroke (ISO)

type 2 diabetes mellitus (ISO)

vasculogenic impotence (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

aging (ISO)

brain development (ISO)

glucose metabolic process (ISO)

lipid metabolic process (ISO)

negative regulation of cytokine production involved in inflammatory response (ISO)

negative regulation of focal adhesion assembly (ISO)

negative regulation of lipoprotein lipid oxidation (ISO)

negative regulation of monocyte chemotactic protein-1 production (ISO)

negative regulation of platelet-derived growth factor receptor signaling pathway (ISO)

negative regulation of protein import into nucleus (ISO)

negative regulation of smooth muscle cell proliferation (ISO)

negative regulation of smooth muscle cell-matrix adhesion (ISO)

negative regulation of T cell migration (ISO)

peripheral nervous system axon regeneration (ISO)

response to axon injury (ISO)

response to drug (ISO)

response to reactive oxygen species (ISO)

tissue regeneration (ISO)

Cellular Component

cytoplasm (ISO)

cytosolic ribosome (ISO)

dendrite (ISO)

endoplasmic reticulum (ISO)

extracellular space (ISO)

neuronal cell body (ISO)

perinuclear region of cytoplasm (ISO)

Molecular Function

cholesterol binding (ISO)

protein binding (ISO)

References

Genomics

Comparative Map Data

Apod
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936833	260,798 - 277,060 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

APOD
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	3	195,568,705 - 195,584,033 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	3	195,568,705 - 195,583,940 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	3	195,295,573 - 195,311,076 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
GRCh37	3	195,295,576 - 195,310,811 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	196,776,865 - 196,792,278 (-)	NCBI	NCBI36		hg18	NCBI36
Celera	3	193,705,274 - 193,720,781 (-)	NCBI
Cytogenetic Map	3	q29	NCBI
HuRef	3	192,666,066 - 192,681,572 (-)	NCBI		HuRef
CHM1_1	3	195,258,489 - 195,273,995 (-)	NCBI		CHM1_1

Apod
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	16	31,115,010 - 31,133,626 (-)	NCBI	GRCm39		mm39
GRCm38	16	31,296,192 - 31,314,808 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	16	31,296,192 - 31,314,808 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	16	31,296,278 - 31,314,682 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	16	31,215,939 - 31,234,343 (-)	NCBI			mm8
Celera	16	31,811,354 - 31,812,738 (-)	NCBI		Celera
Cytogenetic Map	16	B2	NCBI
cM Map	16	21.41	NCBI

Apod
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	11	69,431,261 - 69,452,306 (+)	NCBI
Rnor_6.0 Ensembl	11	72,705,129 - 72,726,301 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	11	72,705,204 - 72,726,263 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	11	75,781,496 - 75,804,020 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	11	68,851,395 - 68,872,467 (+)	NCBI		Celera
Cytogenetic Map	11	q22	NCBI

Apod
(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_004955420	13,553,058 - 13,573,690 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955420	13,553,254 - 13,570,357 (+)	NCBI	ChiLan1.0	ChiLan1.0

APOD
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	3	203,152,476 - 203,167,888 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	203,152,476 - 203,168,060 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	3	192,852,887 - 192,868,233 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

APOD
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	33	30,488,135 - 30,509,289 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	33	30,490,149 - 30,504,804 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

APOD
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	132,514,949 - 132,562,599 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	132,514,546 - 132,562,594 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	142,076,180 - 142,096,088 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

APOD
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	15	89,612,210 - 89,624,038 (-)	NCBI
ChlSab1.1 Ensembl	15	89,612,040 - 89,624,012 (-)	Ensembl

Apod
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624730	62,535,005 - 62,552,405 (+)	NCBI

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005340960	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGTP01111366	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AGTP01111367	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AGTP01111368	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

XM_005340960 ⟹ XP_005341017

RefSeq Status:

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0	NW_004936833	260,798 - 277,060 (-)	NCBI

Sequence:

show sequence

AGCTTATAAAATAACGGGTGAAGCCAGTCACAAAGACAAGGCACCTCAGTTTGGGTGATTCTGC
ATGTGGAAACTGCCTTCGTCTTGATTTTTTTAAAAAAGGCTCCCTCTGCAGCCACCAGCCCCAA
GATGACCAAGATGCTGTTGCTGCTTTCTGCACTTCTGGGTCTCTTCTCTACGGCCAGGGGACAA
ACGTTCCATCTTGGGAAATGCCCGACTCCTCCGGTGCAGGAATACTTTGACGTGACTAAGTATC
TTGGAAGATGGTATGAAATTGAGAAGATCCCAGTGAGCTTTGAGAAGGGAAAGTGCATCCAAGC
CAACTACTCGCTAATGGAAACCGGAAAAATCAAAGTGCTAAACCAGGAGTTGAGATATGATGGA
ACTGTGAATCAAATTGAAGGTGAAGCCATCGTGTACAACCTCACAGAGCCGGCAAAACTAGGAG
TTAAGTTTTCCCAGTTGATGCCATCAGCACCGTACTGGGTCCTGGCTACCGACTATGAGAACTA
TGCCCTCGTGTACTCCTGTACCACCATCATCTGGCTTTTTCATTTGGATCATGTTTGGATCTTG
GGAAGAAACCCGTATCTCCCCCAAGAAACTGTGACCTATCTAAAAAGTATCCTGACCTCTAATA
ACATTAGTATTGAGAAAATGACGAAGACAGATCAGGAGAACTGCCCTGAGTTCCTGGGAAGAGG
CTCTTAAGCAAGGCTGTGTGTATTCCAGATTACTTCTTTTGCTTTGCTTTCCTGCTCCCCTTCC
CACCCCTCCCCTCGTTAATACAAAGCGACCATCCATGATGAGCTACTGCAAATACCAGAAGGGA
CATTTGATTGCGGAAACCAACGGAAGGACACTCAAAGAAAGTTGGTCCAAGCACTGCCATGCCC
TACCCTGTCGCCTTGCCAGCCCAGTAATAAACTTGTTGCTGACCTGCTGTGCTCACAGTGGATT
CTGAA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005341017	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	XP_005341017 ⟸ XM_005340960
- UniProtKB:	I3NB19 (UniProtKB/TrEMBL)
- Sequence:	show sequence MTKMLLLLSALLGLFSTARGQTFHLGKCPTPPVQEYFDVTKYLGRWYEIEKIPVSFEKGKCIQA NYSLMETGKIKVLNQELRYDGTVNQIEGEAIVYNLTEPAKLGVKFSQLMPSAPYWVLATDYENY ALVYSCTTIIWLFHLDHVWILGRNPYLPQETVTYLKSILTSNNISIEKMTKTDQENCPEFLGRG S hide sequence

Protein Domains

Lipocln_cytosolic_FA-bd_dom

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000023498	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSSTOP00000021566	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000027058	ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH	2.40.128.20	UniProtKB/TrEMBL
InterPro	ApoD_vertbrte	UniProtKB/TrEMBL
	ApolipopD	UniProtKB/TrEMBL
	Calycin	UniProtKB/TrEMBL
	Lipocalin_ApoD	UniProtKB/TrEMBL
	Lipocalin_CS	UniProtKB/TrEMBL
	Lipocln_cytosolic_FA-bd_dom	UniProtKB/TrEMBL
NCBI Gene	Apod	ENTREZGENE
Pfam	Lipocalin	UniProtKB/TrEMBL
PIRSF	Lipocalin_ApoD	UniProtKB/TrEMBL
PRINTS	APODVERTBRTE	UniProtKB/TrEMBL
	APOLIPOPROTD	UniProtKB/TrEMBL
PROSITE	LIPOCALIN	UniProtKB/TrEMBL
Superfamily-SCOP	SSF50814	UniProtKB/TrEMBL
UniProt	I3NB19	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)

Imported Disease Annotations - CTD