Lama3 (laminin subunit alpha 3) - Rat Genome Database

Name: Lama3
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Lama3 (laminin subunit alpha 3) Rattus norvegicus

Analyze

Symbol:

Lama3

Name:

laminin subunit alpha 3

RGD ID:

628776

Description:

Predicted to enable signaling receptor binding activity. Involved in cell-cell adhesion and hemidesmosome assembly. Located in adherens junction and hemidesmosome. Part of laminin-3 complex. Human ortholog(s) of this gene implicated in junctional epidermolysis bullosa and lung small cell carcinoma. Orthologous to human LAMA3 (laminin subunit alpha 3); PARTICIPATES IN syndecan signaling pathway; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,4,6-trinitrotoluene.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

laminin 5 alpha 3; laminin subunit alpha-3; laminin, alpha 3; LOC307582; similar to Laminin alpha-3 chain precursor (Nicein alpha subunit)

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):	LAMA3 (laminin subunit alpha 3)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OrthoDB
Mus musculus (house mouse):	Lama3 (laminin, alpha 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Lama3 (laminin subunit alpha 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	LAMA3 (laminin subunit alpha 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	LAMA3 (laminin subunit alpha 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	LOC101971816 (laminin subunit alpha-3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	LAMA3 (laminin subunit alpha 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	LAMA3 (laminin subunit alpha 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Lama3 (laminin subunit alpha 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	LAMA3 (laminin subunit alpha 3)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Lama3 (laminin, alpha 3)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	si:ch211-241e1.3	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder)
Danio rerio (zebrafish):	lama3 (laminin, alpha 3)	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OMA\|OrthoFinder\|PhylomeDB)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	18	3,523,168 - 3,751,722 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	18	3,523,133 - 3,751,353 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	18	3,744,392 - 3,974,325 (+)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	18	4,531,960 - 4,761,892 (+)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	18	3,781,462 - 4,020,783 (+)	NCBI	Rnor_WKY
Rnor_6.0	18	3,704,866 - 3,941,215 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	18	3,705,916 - 3,940,838 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	18	3,712,673 - 3,939,550 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	18	4,030,463 - 4,121,355 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	18	4,030,462 - 4,121,355 (+)	NCBI
Celera	18	3,569,544 - 3,806,888 (+)	NCBI		Celera
Cytogenetic Map	18	p13	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

chronic ulcer of skin (ISO)

genetic disease (ISO)

idiopathic pulmonary fibrosis (ISO)

intellectual disability (ISO)

junctional epidermolysis bullosa (ISO)

Junctional Epidermolysis Bullosa 1B, Severe (ISO)

Junctional Epidermolysis Bullosa 2A, Intermediate (ISO)

Junctional Epidermolysis Bullosa 2B, Severe (ISO)

Junctional Epidermolysis Bullosa 2C, Laryngoonychocutaneous (ISO)

junctional epidermolysis bullosa Herlitz type (ISO)

junctional epidermolysis bullosa non-Herlitz type (ISO,ISS)

lung small cell carcinoma (ISO)

nail disease (ISO)

Niemann-Pick disease type C1 (ISO)

Wounds and Injuries (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

1-octadec-9-enoylglycero-3-phosphate (ISO)

17beta-estradiol (ISO)

17beta-hydroxy-5alpha-androstan-3-one (ISO)

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

2,4,6-trinitrobenzenesulfonic acid (ISO)

2,4,6-trinitrotoluene (EXP)

2,4-dinitrotoluene (EXP)

3-isobutyl-1-methyl-7H-xanthine (ISO)

3H-1,2-dithiole-3-thione (EXP)

4,4'-sulfonyldiphenol (ISO)

4-amino-2,6-dinitrotoluene (EXP)

4-hydroxyphenyl retinamide (ISO)

8-Br-cAMP (ISO)

9-cis-retinoic acid (ISO)

acrolein (ISO)

adefovir pivoxil (ISO)

aflatoxin B1 (ISO)

all-trans-4-oxoretinoic acid (ISO)

all-trans-retinoic acid (ISO)

alpha-pinene (ISO)

ammonium chloride (EXP)

amphetamine (EXP)

antirheumatic drug (ISO)

arsenous acid (ISO)

benzo[a]pyrene (ISO)

benzo[b]fluoranthene (ISO)

benzo[e]pyrene (ISO)

bis(2-chloroethyl) sulfide (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

butan-1-ol (ISO)

butanal (ISO)

cadmium dichloride (ISO)

calcitriol (ISO)

carbon nanotube (ISO)

chlordecone (ISO)

chloroacetaldehyde (ISO)

chloropicrin (ISO)

cidofovir anhydrous (ISO)

cisplatin (ISO)

clodronic acid (ISO)

copper atom (ISO)

copper(0) (ISO)

cyclosporin A (ISO)

dexamethasone (ISO)

diarsenic trioxide (ISO)

dibutyl phthalate (ISO)

dichloroacetic acid (ISO)

dioxygen (ISO)

doxorubicin (ISO)

endosulfan (EXP,ISO)

epoxiconazole (ISO)

ethanol (ISO)

fenthion (ISO)

folic acid (ISO)

formaldehyde (ISO)

fulvestrant (ISO)

gentamycin (EXP)

ibuprofen (ISO)

ifosfamide (ISO)

indole-3-methanol (EXP)

isotretinoin (ISO)

lead diacetate (EXP,ISO)

leflunomide (EXP)

lysophosphatidylcholine (ISO)

mercury dichloride (EXP)

methapyrilene (ISO)

methylphenidate (ISO)

mifepristone (ISO)

ML-7 (ISO)

N-nitrosodiethylamine (EXP,ISO)

nefazodone (EXP)

ochratoxin A (EXP)

ozone (ISO)

palbociclib (ISO)

paracetamol (EXP)

parathion (ISO)

phenobarbital (ISO)

pirinixic acid (ISO)

potassium dichromate (ISO)

pregnenolone 16alpha-carbonitrile (EXP)

progesterone (ISO)

silicon dioxide (ISO)

sodium arsenite (ISO)

sphingosine 1-phosphate (ISO)

sulforaphane (ISO)

sunitinib (ISO)

tamoxifen (ISO)

testosterone (ISO)

tetrachloroethene (ISO)

tetrachloromethane (EXP,ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

trichloroethene (EXP,ISO)

trimellitic anhydride (ISO)

triphenyl phosphate (EXP)

triptonide (ISO)

troglitazone (ISO)

valdecoxib (EXP)

valproic acid (ISO)

vinclozolin (EXP)

Y-27632 (ISO)

zoledronic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cell-cell adhesion (IMP)

endodermal cell differentiation (ISO)

hemidesmosome assembly (IMP)

regulation of cell adhesion (IEA)

regulation of cell migration (IEA)

regulation of embryonic development (IEA)

Cellular Component

adherens junction (IDA)

basement membrane (ISO)

endoplasmic reticulum (IEA,ISO)

extracellular region (IEA)

hemidesmosome (IDA)

laminin-3 complex (IDA)

laminin-5 complex (ISO)

Molecular Function

protein binding (IPI)

signaling receptor binding (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

syndecan signaling pathway (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Laminin-5 and hemidesmosomes: role of the alpha 3 chain subunit in hemidesmosome stability and assembly.	Baker SE, etal., J Cell Sci 1996 Oct;109 ( Pt 10):2509-20.
2.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
4.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
5.	PID Annotation Import Pipeline	Pipeline to import Pathway Interaction Database annotations from NCI into RGD
6.	GOA pipeline	RGD automated data pipeline
7.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
9.	Epigenetic inactivation of laminin-5-encoding genes in lung cancers.	Sathyanarayana UG, etal., Clin Cancer Res. 2003 Jul;9(7):2665-72.
10.	Cloning of the laminin alpha 3 chain gene (LAMA3) and identification of a homozygous deletion in a patient with Herlitz junctional epidermolysis bullosa.	Vidal F, etal., Genomics. 1995 Nov 20;30(2):273-80.
11.	Laminin alpha 3 forms a complex with beta3 and gamma3 chains that serves as the ligand for alpha 6beta1-integrin at the apical ectoplasmic specialization in adult rat testes.	Yan HH and Cheng CY, J Biol Chem. 2006 Jun 23;281(25):17286-303. Epub 2006 Apr 11.

Additional References at PubMed

PMID:9264260	PMID:12051813	PMID:15895400	PMID:18757743	PMID:20039268	PMID:20301201	PMID:23154389	PMID:23533145	PMID:27068509

Genomics

Comparative Map Data

Lama3
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	18	3,523,168 - 3,751,722 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	18	3,523,133 - 3,751,353 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	18	3,744,392 - 3,974,325 (+)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	18	4,531,960 - 4,761,892 (+)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	18	3,781,462 - 4,020,783 (+)	NCBI	Rnor_WKY
Rnor_6.0	18	3,704,866 - 3,941,215 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	18	3,705,916 - 3,940,838 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	18	3,712,673 - 3,939,550 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	18	4,030,463 - 4,121,355 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	18	4,030,462 - 4,121,355 (+)	NCBI
Celera	18	3,569,544 - 3,806,888 (+)	NCBI		Celera
Cytogenetic Map	18	p13	NCBI

LAMA3
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	18	23,689,453 - 23,955,066 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	18	23,689,453 - 23,956,222 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	18	21,269,417 - 21,535,030 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	18	19,523,560 - 19,789,028 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	18	19,707,003 - 19,789,025	NCBI
Celera	18	18,085,885 - 18,351,313 (+)	NCBI		Celera
Cytogenetic Map	18	q11.2	NCBI
HuRef	18	18,125,049 - 18,390,663 (+)	NCBI		HuRef
CHM1_1	18	21,196,874 - 21,462,312 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	18	23,883,722 - 24,149,324 (+)	NCBI		T2T-CHM13v2.0

Lama3
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	18	12,466,806 - 12,716,070 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	18	12,466,876 - 12,716,070 (+)	Ensembl		GRCm39 Ensembl
GRCm38	18	12,333,417 - 12,583,013 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	18	12,333,819 - 12,583,013 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	18	12,492,533 - 12,741,522 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	18	12,477,560 - 12,726,182 (+)	NCBI		MGSCv36	mm8
Celera	18	12,567,449 - 12,814,993 (+)	NCBI		Celera
Cytogenetic Map	18	A1	NCBI
cM Map	18	6.2	NCBI

Lama3
(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	NW_004955402	11,980,980 - 12,362,143 (+)	NCBI	ChiLan1.0	ChiLan1.0

LAMA3
(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	18	20,750,271 - 20,832,028 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	18	20,565,649 - 20,831,957 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	18	16,941,316 - 17,208,363 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3

LAMA3
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	7	64,405,719 - 64,654,910 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	7	64,406,082 - 64,655,268 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	7	63,854,180 - 64,103,577 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	7	64,463,775 - 64,714,403 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	7	64,463,779 - 64,714,403 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	7	64,132,606 - 64,382,587 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	7	64,147,994 - 64,397,958 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	7	64,453,184 - 64,703,083 (-)	NCBI		UU_Cfam_GSD_1.0

LOC101971816
(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_024404944	60,496,309 - 60,694,484 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936550	3,122,089 - 3,355,319 (+)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936550	3,121,163 - 3,357,517 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LAMA3
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	108,548,715 - 108,805,690 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	108,548,818 - 108,805,700 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	101,146,225 - 101,337,451 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LAMA3
(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	18	56,580,245 - 56,851,381 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	18	56,580,700 - 56,850,451 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666050	31,327,064 - 31,599,113 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Lama3
(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 1.0	NW_004624770	8,237,085 - 8,482,770 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Lama3
947 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	33
Count of miRNA genes:	30
Interacting mature miRNAs:	32
Transcripts:	ENSRNOT00000015363
Prediction methods:	Miranda, Rnahybrid, Targetscan
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.

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
8552968	Pigfal19	Plasma insulin-like growth factor 1 level QTL 19	11.4		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	18	1	25758124	Rat
9590248	Scort10	Serum corticosterone level QTL 10	19.71	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	18	1	25758124	Rat
2312598	Bp340	Blood pressure QTL 340		0.05	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	18	1	30558703	Rat
2300180	Bmd67	Bone mineral density QTL 67	4.8	0.0001	femur mineral mass (VT:0010011)	bone mineral density (CMO:0001226)	18	1	34291613	Rat
2293661	Bss50	Bone structure and strength QTL 50	4.64	0.0003	lumbar vertebra size trait (VT:0010518)	lumbar vertebra trabecular cross-sectional area (CMO:0001692)	18	1	34291613	Rat
61388	Bp2	Blood pressure QTL 2	3.23		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	18	1	35374722	Rat
9589153	Insul31	Insulin level QTL 31	7.15	0.05	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	18	1	42547119	Rat
1641910	Colcr3	Colorectal carcinoma resistance QTL 3	5.02	0.000007	intestine integrity trait (VT:0010554)	poorly differentiated malignant colorectal tumor surface area measurement (CMO:0002078)	18	2249477	22066430	Rat
1641910	Colcr3	Colorectal carcinoma resistance QTL 3	5.02	0.000007	intestine integrity trait (VT:0010554)	poorly differentiated malignant colorectal tumor number (CMO:0002076)	18	2249477	22066430	Rat

Markers in Region

BF406322

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	18	3,643,357 - 3,643,522 (+)	MAPPER	mRatBN7.2
Rnor_6.0	18	3,826,815 - 3,826,979	NCBI	Rnor6.0
Rnor_5.0	18	3,832,653 - 3,832,817	UniSTS	Rnor5.0
RGSC_v3.4	18	3,995,549 - 3,995,713	UniSTS	RGSC3.4
Celera	18	3,699,431 - 3,699,595	UniSTS
RH 3.4 Map	18	81.41	UniSTS
Cytogenetic Map	18	p13	UniSTS

PMC113197P1

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	18	3,677,970 - 3,678,151 (+)	MAPPER	mRatBN7.2
Rnor_6.0	18	3,861,420 - 3,861,600	NCBI	Rnor6.0
Rnor_5.0	18	3,867,258 - 3,867,438	UniSTS	Rnor5.0
RGSC_v3.4	18	4,030,403 - 4,030,583	UniSTS	RGSC3.4
Celera	18	3,733,932 - 3,734,112	UniSTS
Cytogenetic Map	18	p13	UniSTS

ECD14724

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	18	3,787,813 - 3,789,309	NCBI	Rnor6.0
Rnor_5.0	18	3,793,999 - 3,795,495	UniSTS	Rnor5.0
Cytogenetic Map	18	p13	UniSTS

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	1		7		7				2		5	11
Low	2	18	36	27	12	27	8	11	60	31	24		8
Below cutoff		23	14	14		14			12	4	11

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001393748	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_173306	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_003753026	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008774089	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017601153	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039096922	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039096923	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039096924	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039096925	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039096926	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039096927	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005496046	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH474065	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000298	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U61261	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000015363 ⟹ ENSRNOP00000015363

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	18	3,678,031 - 3,751,353 (+)	Ensembl
Rnor_6.0 Ensembl	18	3,861,539 - 3,940,823 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000092814 ⟹ ENSRNOP00000075975

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	18	3,900,714 - 3,940,838 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000092846 ⟹ ENSRNOP00000075948

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	18	3,523,133 - 3,751,353 (+)	Ensembl
Rnor_6.0 Ensembl	18	3,705,916 - 3,887,148 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000093089 ⟹ ENSRNOP00000076030

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	18	3,887,419 - 3,893,314 (+)	Ensembl

RefSeq Acc Id:

NM_173306 ⟹ NP_775428

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	18	3,678,031 - 3,751,353 (+)	NCBI

RefSeq Acc Id:

XM_039096922 ⟹ XP_038952850

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	18	3,523,265 - 3,751,722 (+)	NCBI

RefSeq Acc Id:

XM_039096923 ⟹ XP_038952851

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	18	3,523,172 - 3,751,722 (+)	NCBI

RefSeq Acc Id:

XM_039096924 ⟹ XP_038952852

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	18	3,567,893 - 3,751,326 (+)	NCBI

RefSeq Acc Id:

XM_039096925 ⟹ XP_038952853

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	18	3,597,529 - 3,751,326 (+)	NCBI

RefSeq Acc Id:

XM_039096926 ⟹ XP_038952854

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	18	3,634,707 - 3,751,722 (+)	NCBI

RefSeq Acc Id:

XM_039096927 ⟹ XP_038952855

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	18	3,658,410 - 3,751,722 (+)	NCBI

RefSeq Acc Id:

XR_005496046

RefSeq Status:

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	18	3,523,168 - 3,705,490 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001380677	(Get FASTA)	NCBI Sequence Viewer
	NP_775428	(Get FASTA)	NCBI Sequence Viewer
	XP_038952850	(Get FASTA)	NCBI Sequence Viewer
	XP_038952851	(Get FASTA)	NCBI Sequence Viewer
	XP_038952852	(Get FASTA)	NCBI Sequence Viewer
	XP_038952853	(Get FASTA)	NCBI Sequence Viewer
	XP_038952854	(Get FASTA)	NCBI Sequence Viewer
	XP_038952855	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAB17053	(Get FASTA)	NCBI Sequence Viewer
	EDL75009	(Get FASTA)	NCBI Sequence Viewer
	EDL75010	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

ENSRNOP00000075948 ⟸ ENSRNOT00000092846

RefSeq Acc Id:

ENSRNOP00000075975 ⟸ ENSRNOT00000092814

RefSeq Acc Id:

ENSRNOP00000076030 ⟸ ENSRNOT00000093089

RefSeq Acc Id:

ENSRNOP00000015363 ⟸ ENSRNOT00000015363

RefSeq Acc Id:	XP_038952851 ⟸ XM_039096923
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038952850 ⟸ XM_039096922
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038952852 ⟸ XM_039096924
- Peptide Label:	isoform X3

RefSeq Acc Id:	XP_038952853 ⟸ XM_039096925
- Peptide Label:	isoform X4

RefSeq Acc Id:	XP_038952854 ⟸ XM_039096926
- Peptide Label:	isoform X5

RefSeq Acc Id:	XP_038952855 ⟸ XM_039096927
- Peptide Label:	isoform X6

RefSeq Acc Id:	NP_775428 ⟸ NM_173306
- Peptide Label:	precursor
- UniProtKB:	D3ZN05 (UniProtKB/TrEMBL)

Protein Domains

Laminin EGF-like Laminin G Laminin IV type A Laminin N-terminal

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:628776	AgrOrtholog
BioCyc Gene	G2FUF-8364	BioCyc
Ensembl Genes	ENSRNOG00000011300	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000015363	ENTREZGENE
	ENSRNOP00000015363.8	UniProtKB/TrEMBL
	ENSRNOP00000075948	ENTREZGENE
	ENSRNOP00000075948.2	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000015363	ENTREZGENE
	ENSRNOT00000015363.8	UniProtKB/TrEMBL
	ENSRNOT00000092846	ENTREZGENE
	ENSRNOT00000092846.2	UniProtKB/TrEMBL
Gene3D-CATH	1.20.5.170	UniProtKB/TrEMBL
	2.60.120.200	UniProtKB/TrEMBL
	Galactose-binding domain-like	UniProtKB/TrEMBL
	Laminin	UniProtKB/TrEMBL
	Tie2 ligand-binding domain superfamily	UniProtKB/TrEMBL
InterPro	ConA-like_dom_sf	UniProtKB/TrEMBL
	EGF-like_dom	UniProtKB/TrEMBL
	Laminin_aI	UniProtKB/TrEMBL
	Laminin_dom_II	UniProtKB/TrEMBL
	Laminin_EGF	UniProtKB/TrEMBL
	Laminin_G	UniProtKB/TrEMBL
	Laminin_IV	UniProtKB/TrEMBL
	Laminin_N	UniProtKB/TrEMBL
NCBI Gene	307582	ENTREZGENE
PANTHER	KON-TIKI, ISOFORM B	UniProtKB/TrEMBL
	LAMININ SUBUNIT ALPHA-3	UniProtKB/TrEMBL
	NETRIN/LAMININ-RELATED	UniProtKB/TrEMBL
	PIKACHURIN-LIKE PROTEIN	UniProtKB/TrEMBL
Pfam	Laminin_B	UniProtKB/TrEMBL
	Laminin_EGF	UniProtKB/TrEMBL
	Laminin_G_1	UniProtKB/TrEMBL
	Laminin_G_2	UniProtKB/TrEMBL
	Laminin_I	UniProtKB/TrEMBL
	Laminin_II	UniProtKB/TrEMBL
	Laminin_N	UniProtKB/TrEMBL
PhenoGen	Lama3	PhenoGen
PRINTS	EGFLAMININ	UniProtKB/TrEMBL
PROSITE	EGF_LAM_1	UniProtKB/TrEMBL
	EGF_LAM_2	UniProtKB/TrEMBL
	LAM_G_DOMAIN	UniProtKB/TrEMBL
	LAMININ_IVA	UniProtKB/TrEMBL
	LAMININ_NTER	UniProtKB/TrEMBL
SMART	EGF	UniProtKB/TrEMBL
	EGF_Lam	UniProtKB/TrEMBL
	LamB	UniProtKB/TrEMBL
	LamG	UniProtKB/TrEMBL
	LamNT	UniProtKB/TrEMBL
Superfamily-SCOP	EGF/Laminin	UniProtKB/TrEMBL
	SSF49899	UniProtKB/TrEMBL
UniProt	A0A1B0GWM3	ENTREZGENE, UniProtKB/TrEMBL
	D3ZN05	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2015-12-02	Lama3	laminin subunit alpha 3	Lama3	laminin, alpha 3	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2007-09-11	Lama3	laminin, alpha 3	LOC307582	similar to Laminin alpha-3 chain precursor (Nicein alpha subunit)	Data Merged	737654	APPROVED
2006-11-19	LOC307582	similar to Laminin alpha-3 chain precursor (Nicein alpha subunit)			Symbol and Name status set to provisional	70820	PROVISIONAL
2004-09-10	Lama3	laminin, alpha 3		laminin 5 alpha 3	Name updated	1299863	APPROVED
2003-02-27	Lama3	laminin 5 alpha 3			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_protein	150 kDa in size	633107

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 - CTD

Imported Disease Annotations - MGI

Imported Disease Annotations - OMIM

Imported Annotations - PID (archival)

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Imported Disease Annotations - ClinVar

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Imported Disease Annotations - OMIM

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