Cd320 (CD320 molecule) - Rat Genome Database

Name: Cd320
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Cd320 (CD320 molecule) Rattus norvegicus

Analyze

Symbol:

Cd320

Name:

CD320 molecule

RGD ID:

1305860

Description:

Predicted to have calcium ion binding activity and cobalamin binding activity. Predicted to be involved in cobalamin transport; positive regulation of B cell activation; and regulation of vitamin metabolic process. Predicted to localize to endoplasmic reticulum and integral component of plasma membrane. Human ortholog(s) of this gene implicated in methylmalonic acidemia due to transcobalamin receptor defect. Orthologous to human CD320 (CD320 molecule); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

CD320 antigen; CD320 antigen-like; LOC362851; RGD1305860; similar to 8D6 antigen; TCblR; transcobalamin receptor

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

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):	CD320 (CD320 molecule)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Cd320 (CD320 antigen)	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Cd320 (CD320 molecule)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CD320 (CD320 molecule)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CD320 (CD320 molecule)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Cd320 (CD320 molecule)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CD320 (CD320 molecule)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	CD320 (CD320 molecule)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Cd320 (CD320 molecule)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	CD320 (CD320 molecule)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Cd320 (CD320 antigen)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	7	14,626,171 - 14,631,976 (+)	NCBI
Rnor_6.0 Ensembl	7	18,700,344 - 18,706,244 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	7	18,700,445 - 18,706,244 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	7	18,878,058 - 18,883,844 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	16,338,136 - 16,343,892	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	7	16,338,135 - 16,343,892	NCBI
Cytogenetic Map	7	q13	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autistic disorder (ISO)

familial hemophagocytic lymphohistiocytosis 5 (ISO)

methylmalonic acidemia due to transcobalamin receptor defect (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

2,2',5,5'-tetrachlorobiphenyl (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

2,4-dinitrotoluene (EXP)

2,6-dinitrotoluene (EXP)

acetamide (EXP)

amiodarone (ISO)

ammonium chloride (EXP)

Aroclor 1254 (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

cadmium dichloride (EXP)

carbon nanotube (ISO)

chromium(6+) (ISO)

copper atom (ISO)

copper(0) (ISO)

coumestrol (ISO)

cyclosporin A (ISO)

dibutyl phthalate (ISO)

doxorubicin (ISO)

ethyl methanesulfonate (ISO)

flutamide (EXP)

folic acid (ISO)

methyl methanesulfonate (ISO)

PCB138 (ISO)

sunitinib (ISO)

tamoxifen (ISO)

tert-butyl hydroperoxide (ISO)

testosterone (EXP)

tetrachloromethane (EXP)

titanium dioxide (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

B cell costimulation (ISO,ISS)

cobalamin transport (ISO,ISS)

positive regulation of B cell proliferation (ISO,ISS)

regulation of vitamin metabolic process (ISO)

signal transduction (IEA)

Cellular Component

endoplasmic reticulum (IEA,ISO)

integral component of plasma membrane (ISO,ISS)

plasma membrane (ISO)

Molecular Function

calcium ion binding (ISO,ISS)

cobalamin binding (ISO)

growth factor activity (IEA)

protein binding (ISO)

References

References - curated


1.	OMIM Disease Annotation Pipeline
2.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3.	RGD automated import pipeline for gene-chemical interactions
4.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Additional References at PubMed

PMID:10727470	PMID:18779389	PMID:19946888	PMID:20524213	PMID:23376485	PMID:23430977	PMID:27411955

Genomics

Comparative Map Data

Cd320
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	7	14,626,171 - 14,631,976 (+)	NCBI
Rnor_6.0 Ensembl	7	18,700,344 - 18,706,244 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	7	18,700,445 - 18,706,244 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	7	18,878,058 - 18,883,844 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	16,338,136 - 16,343,892	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	7	16,338,135 - 16,343,892	NCBI
Cytogenetic Map	7	q13	NCBI

CD320
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	19	8,302,127 - 8,308,358 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	19	8,302,127 - 8,308,358 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	19	8,367,011 - 8,373,242 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
GRCh37	19	8,367,011 - 8,373,439 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	19	8,273,011 - 8,279,239 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	19	8,273,010 - 8,279,239	NCBI
Celera	19	8,223,534 - 8,229,765 (-)	NCBI
Cytogenetic Map	19	p13.2	NCBI
HuRef	19	8,021,040 - 8,027,272 (-)	NCBI		HuRef
CHM1_1	19	8,366,510 - 8,372,742 (-)	NCBI		CHM1_1

Cd320
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	17	34,062,065 - 34,068,748 (+)	NCBI	GRCm39		mm39
GRCm38	17	33,843,091 - 33,849,774 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	17	33,843,091 - 33,849,774 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	17	33,980,036 - 33,986,719 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	17	33,449,214 - 33,456,005 (+)	NCBI			mm8
Celera	17	36,600,303 - 36,608,793 (+)	NCBI		Celera
Cytogenetic Map	17	B1	NCBI
cM Map	17	17.98	NCBI

Cd320
(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_004955563	1,084,474 - 1,093,111 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955563	1,084,523 - 1,089,395 (+)	NCBI	ChiLan1.0	ChiLan1.0

CD320
(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	19	8,438,955 - 8,445,464 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	19	8,438,955 - 8,445,464 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	19	7,587,760 - 7,594,055 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

CD320
(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	20	52,886,087 - 52,890,366 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	20	52,886,087 - 52,890,361 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Cd320
(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_004936588	5,142,561 - 5,147,111 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CD320
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	2	70,965,672 - 70,970,289 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	2	70,961,897 - 70,970,289 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

CD320
(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	6	7,666,201 - 7,673,088 (-)	NCBI
ChlSab1.1 Ensembl	6	7,665,895 - 7,673,599 (-)	Ensembl

Cd320
(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_004624828	1,102,016 - 1,106,314 (-)	NCBI

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
2298550	Neuinf6	Neuroinflammation QTL 6	3.3		nervous system integrity trait (VT:0010566)	spinal cord RT1-B protein level (CMO:0002132)	7	1	34147172	Rat
9590142	Scort5	Serum corticosterone level QTL 5	24.4	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	7	1	34828535	Rat
7411566	Bw136	Body weight QTL 136	10.4	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	7	1	34828535	Rat
724560	Plsm3	Polydactyly-luxate syndrome (PLS) morphotypes QTL 3		0.0003	tibia length (VT:0004357)	tibia length (CMO:0000450)	7	1	37009673	Rat
2317047	Wbc4	White blood cell count QTL 4		0.01	leukocyte quantity (VT:0000217)	white blood cell count (CMO:0000027)	7	1	38119654	Rat
1300176	Hrtrt10	Heart rate QTL 10	3.19		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	7	2653138	32258115	Rat
634336	Anxrr17	Anxiety related response QTL 17	3.66		locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	7	2920071	124838025	Rat
61410	Bw19	Body weight QTL 19	6.2	0.001	body mass (VT:0001259)	body weight (CMO:0000012)	7	5911477	50911477	Rat
631503	Bp102	Blood pressure QTL 102	1.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	5951969	50951969	Rat
10755438	Coatc9	Coat color QTL 9		0	coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	7	9758045	54758045	Rat
9590102	Sffal5	Serum free fatty acids level QTL 5	8.62	0.001	blood free fatty acid amount (VT:0001553)	plasma free fatty acids level (CMO:0000546)	7	11647102	56647102	Rat
2298547	Neuinf5	Neuroinflammation QTL 5	3.7		nervous system integrity trait (VT:0010566)	spinal cord Cd74 protein level (CMO:0002131)	7	12328467	67193263	Rat
1643004	Pain2	Pain QTL 2	1		mechanical nociception trait (VT:0002734)	self mutilation severity score (CMO:0002145)	7	12328467	106995532	Rat
1578652	Bmd15	Bone mineral density QTL 15	5.2		femur mineral mass (VT:0010011)	trabecular volumetric bone mineral density (CMO:0001729)	7	12687850	67801690	Rat
10755440	Coatc10	Coat color QTL 10		0	coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	7	13952179	58952179	Rat
10059592	Kidm45	Kidney mass QTL 45	3.95	0.025	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	7	14445685	59445685	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	184
Count of miRNA genes:	131
Interacting mature miRNAs:	139
Transcripts:	ENSRNOT00000009067
Prediction methods:	Microtar, Miranda, Rnahybrid
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	43	55	39	19	39	6	9	74	35	41	11	6
Low			2	2		2	2	2					2
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001014201	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006241128	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC088861	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219198	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ234194	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000177	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000009067 ⟹ ENSRNOP00000009067

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	7	18,700,344 - 18,706,244 (+)	Ensembl

RefSeq Acc Id:

NM_001014201 ⟹ NP_001014223

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	14,626,220 - 14,631,976 (+)	NCBI
Rnor_6.0	7	18,700,488 - 18,706,244 (+)	NCBI
Rnor_5.0	7	18,878,058 - 18,883,844 (+)	NCBI
RGSC_v3.4	7	16,338,136 - 16,343,892 (+)	RGD

Sequence:

show sequence

CGCGGCTGGAGCGGAGCCGAGCGGTTCAGCCAGCGGTTGGATGGCGCGGTGCGGAGCTGGGCGG
GCAGCCGCCCTGGGCCTGGTGCTGCGGCTGCTCTTGGGTCTTAGAACAGGTCCCGAGGCCGCTC
CGGCTCCAACCTCGGCTCCGGCCCATACCCTAGTCCAAGTCTCGGGCCCTAGAGCTGGCTCCTG
CCCAACAGACACCTTCAAGTGTCTTACCAGTGGCTACTGTGTGCCCCTCTCCTGGCGCTGCGAT
GGGGACCGGGATTGCTCTGATGGCAGTGACGAGGAAGAGTGTAGAATTGAGCCATGTGCTCAGA
ATAGGCAGTGCCAGCCACAGCCTGCCCTTCCTTGCTCCTGTGACAACATCAGTGGTTGCTCCGC
TGGCTCAGACAAGAACCTCAACTGTAGCCGCTCACCCTGTCAGGAGGGCGAGCTGCGTTGCATA
CTGGATGATGTCTGTATCCCACACACGTGGCGCTGTGATGGCCACCCAGACTGTCCTGACTCCA
GTGATGAGCTCAGCTGTGACACCGACACAGAAACTGACAAGATATTCCAGGAGGAGAATGCCAC
AACCTCAATGTCTTCTATGATTGTGGAGAAAGAGACCTCTTTCAGAAATGTCACAGTTGCTTCT
GCTGGGCACCCATCCCGAAACCCAAATGCCTATGGGGTTATCGCAGCTGCTGGGGTGTTGAGTG
CCATCCTGGTTTCAGCTACCATTCTCATATTGCTACGACTCAGAGGTCAGGGTTATCTACCCCC
AACAGGGCTGTTGGTGGCTGTGAAGGAGTCGCTGCTGCTGTCAGAAAGGAAAACCTCTTTGATC
TGAGGACATGGTTCCCACCTGGCCCTGAGTACAGTCAGACTGGAACAAAGCTGCAGTGGAACAT
GCAGGTAGCAACTGGCTTCTCAGCTCCGAGACCTGGGCTCTTTTGGCCACAGAGAACTTTGATT
TTTAAACTTCTTCAGATGTGGTCCTGGAGACTGGAGGTCGTCAGACACTCCCTTTGTATGTGGT
GAGCTTTGCTGGAAAATCGCCATAGCCAGGACTGAGGGGCCAGTCCCAGGATGCTCCCAAGAAA
TGGGGCCACCCTGATCTAAACACTCCTTCTGCTCACATTGATGGGCAGCTATTAAAGTTTCTTC
ACCCCCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGG

hide sequence

RefSeq Acc Id:

XM_006241128 ⟹ XP_006241190

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	14,626,171 - 14,631,976 (+)	NCBI
Rnor_6.0	7	18,700,445 - 18,706,244 (+)	NCBI
Rnor_5.0	7	18,878,058 - 18,883,844 (+)	NCBI

Sequence:

show sequence

CTTTGTGTGCGCGTGCGCGAGAATCAGCGCACCTCTGTGCAGTCGCGGCTGGAGCGGAGCCGAG
CGGTTCAGCCAGCGGTTGGATGGCGCGGTGCGGAGCTGGGCGGGCAGCCGCCCTGGGCCTGGTG
CTGCGGCTGCTCTTGGGTCTTAGAACAGGTCCCGAGGCCGCTCCGGCTCCAACCTCGGCTCCGG
CCCATACCCTAGTCCAAGTCTCGGGCCCTAGAGCTGGCTCCTGCCCAACAGACACCTTCAAGTG
TCTTACCAGTGGCTACTGTGTGCCCCTCTCCTGGCGCTGCGATGGGGACCGGGATTGCTCTGAT
GGCAGTGACGAGGAAGAGTGTAGAATTGAGCCATGTGCTCAGAATAGGCAGTGCCAGCCACAGC
CTGCCCTTCCTTGCTCCTGTGACAACATCAGTGGTTGCTCCGCTGGCTCAGACAAGAACCTCAA
CTGTAGCCGCTCACCCTGTCAGGAGGGCGAGCTGCGTTGCATACTGGATGATGTCTGTATCCCA
CACACGTGGCGCTGTGATGGCCACCCAGACTGTCCTGACTCCAGTGATGAGCTCAGCTGTGACA
CCGACACAGAAACTGACAAGATATTCCAGGAGGAGAATGCCACAACCTCAATGTCTTCTATGAT
TGTGGAGAAAGAGACCTCTTTCAGAAATGTCACAGTTGCTTCTGCTGGGCACCCATCCCGAAAC
CCAAATGCCTATGGGGTTATCGCAGCTGCTGGGCTGTTGGTGGCTGTGAAGGAGTCGCTGCTGC
TGTCAGAAAGGAAAACCTCTTTGATCTGAGGACATGGTTCCCACCTGGCCCTGAGTACAGTCAG
ACTGGAACAAAGCTGCAGTGGAACATGCAGGTAGCAACTGGCTTCTCAGCTCCGAGACCTGGGC
TCTTTTGGCCACAGAGAACTTTGATTTTTAAACTTCTTCAGATGTGGTCCTGGAGACTGGAGGT
CGTCAGACACTCCCTTTGTATGTGGTGAGCTTTGCTGGAAAATCGCCATAGCCAGGACTGAGGG
GCCAGTCCCAGGATGCTCCCAAGAAATGGGGCCACCCTGATCTAAACACTCCTTCTGCTCACAT
TGATGGGCAGCTATTAAAGTTTCTTCACCCCCTC

hide sequence

Protein Sequences


Protein RefSeqs	NP_001014223	(Get FASTA)	NCBI Sequence Viewer
	XP_006241190	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH88861	(Get FASTA)	NCBI Sequence Viewer
	Q5HZW5	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_001014223 ⟸ NM_001014201
- Peptide Label:	precursor
- UniProtKB:	Q5HZW5 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MARCGAGRAAALGLVLRLLLGLRTGPEAAPAPTSAPAHTLVQVSGPRAGSCPTDTFKCLTSGYC VPLSWRCDGDRDCSDGSDEEECRIEPCAQNRQCQPQPALPCSCDNISGCSAGSDKNLNCSRSPC QEGELRCILDDVCIPHTWRCDGHPDCPDSSDELSCDTDTETDKIFQEENATTSMSSMIVEKETS FRNVTVASAGHPSRNPNAYGVIAAAGVLSAILVSATILILLRLRGQGYLPPTGLLVAVKESLLL SERKTSLI hide sequence

RefSeq Acc Id:

XP_006241190 ⟸ XM_006241128

- Peptide Label:

isoform X1

- Sequence:

show sequence

MARCGAGRAAALGLVLRLLLGLRTGPEAAPAPTSAPAHTLVQVSGPRAGSCPTDTFKCLTSGYC
VPLSWRCDGDRDCSDGSDEEECRIEPCAQNRQCQPQPALPCSCDNISGCSAGSDKNLNCSRSPC
QEGELRCILDDVCIPHTWRCDGHPDCPDSSDELSCDTDTETDKIFQEENATTSMSSMIVEKETS
FRNVTVASAGHPSRNPNAYGVIAAAGLLVAVKESLLLSERKTSLI

hide sequence

RefSeq Acc Id:

ENSRNOP00000009067 ⟸ ENSRNOT00000009067

Protein Domains

LDL-receptor class A

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Promoters

RGD ID:

13695090

Promoter ID:

EPDNEW_R5614

Type:

initiation region

Name:

Cd320_1

Description:

CD320 molecule

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	7	18,700,475 - 18,700,535	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

ACI/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

ACI/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

BBDP/Wor (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

BN/SsN (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Buf/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

COP/CrCrl (MCW & UW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob) University of Wisconsin (Dr. James Shull)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Charles River Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)

F344/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

F344/NRrrc (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

FHH/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHH/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

FHL/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHL/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

GH/OmrMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

GK/Ox (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LE/Stm (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/Crl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/NCrlBR (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LH/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LL/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LN/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

M520/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

MHS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MNS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MR/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

SBH/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBH/Ygl sequenced by MCW

SBH/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SBN/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBN/Ygl sequenced by MCW

SBN/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHR/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHRSP/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SR/JrHsd (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Harlan Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SR/JrHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/Jr (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/JrHsdMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SS/JrHsdMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WAG/Rij (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

WKY/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WN/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1305860	AgrOrtholog
Ensembl Genes	ENSRNOG00000006901	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000009067	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000009067	ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH	4.10.400.10	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7310701	IMAGE-MGC_LOAD
InterPro	LDL_receptor-like_sf	UniProtKB/Swiss-Prot
	LDLR_class-A_CS	UniProtKB/Swiss-Prot
	LDrepeatLR_classA_rpt	UniProtKB/Swiss-Prot
KEGG Report	rno:362851	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:105707	IMAGE-MGC_LOAD
NCBI Gene	362851	ENTREZGENE
Pfam	Ldl_recept_a	UniProtKB/Swiss-Prot
PhenoGen	Cd320	PhenoGen
PRINTS	LDLRECEPTOR	UniProtKB/Swiss-Prot
PROSITE	LDLRA_1	UniProtKB/Swiss-Prot
	LDLRA_2	UniProtKB/Swiss-Prot
SMART	LDLa	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF57424	UniProtKB/Swiss-Prot
UniProt	CD320_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2013-05-24	Cd320	CD320 molecule	LOC100365110	CD320 antigen-like	Data Merged	1643240	APPROVED
2013-05-24	Cd320	CD320 molecule	LOC688345	similar to 8D6 antigen	Data Merged	1643240	APPROVED
2010-05-05	LOC100365110	CD320 antigen-like			Symbol and Name status set to provisional	70820	PROVISIONAL
2008-06-27	Cd320	CD320 molecule	Cd320	CD320 antigen	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-11-20	LOC688345	similar to 8D6 antigen			Symbol and Name status set to provisional	70820	PROVISIONAL
2006-03-30	Cd320	CD320 antigen	RGD1305860	similar to 8D6 antigen	Symbol and Name updated	1299863	APPROVED
2005-12-06	RGD1305860	similar to 8D6 antigen	RGD1305860_predicted	similar to 8D6 antigen (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-20	RGD1305860_predicted	similar to 8D6 antigen (predicted)	LOC362851_predicted		Symbol and Name status set to approved	1331353	APPROVED
2005-01-12	LOC362851_predicted	similar to 8D6 antigen (predicted)			Symbol and Name status set to provisional	70820	PROVISIONAL

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 - ClinVar

Imported Disease Annotations - OMIM