Lama5 (laminin subunit alpha 5) - Rat Genome Database

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Gene: Lama5 (laminin subunit alpha 5) Rattus norvegicus
Analyze
Symbol: Lama5
Name: laminin subunit alpha 5
RGD ID: 621023
Description: Predicted to enable integrin binding activity. Predicted to be an extracellular matrix structural constituent. Predicted to be involved in several processes, including cell morphogenesis involved in differentiation; integrin-mediated signaling pathway; and morphogenesis of a polarized epithelium. Predicted to act upstream of or within several processes, including hair follicle development; morphogenesis of an epithelium; and neural crest cell migration. Part of laminin-5 complex. Orthologous to human LAMA5 (laminin subunit alpha 5); PARTICIPATES IN syndecan signaling pathway; cell-extracellular matrix signaling pathway; Entamoebiasis pathway; INTERACTS WITH 1,2-dimethylhydrazine; 1-naphthyl isothiocyanate; 2,2',5,5'-tetrachlorobiphenyl.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: laminin subunit alpha-5; laminin, alpha 5
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23167,270,296 - 167,318,370 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl3167,270,296 - 167,318,451 (-)Ensembl
Rnor_6.03175,553,042 - 175,601,112 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3175,553,045 - 175,601,127 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03181,517,512 - 181,565,641 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43169,233,897 - 169,282,410 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13169,144,153 - 169,145,258 (-)NCBI
Celera3165,261,840 - 165,309,879 (+)NCBICelera
Cytogenetic Map3q43NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (EXP,ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (EXP)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-tribromophenol  (ISO)
2-methylcholine  (ISO)
2-nitrofluorene  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (EXP)
4-amino-2,6-dinitrotoluene  (EXP)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
acetamide  (EXP)
acrylamide  (ISO)
aflatoxin B1  (EXP,ISO)
aldrin  (ISO)
all-trans-retinoic acid  (EXP,ISO)
anthracen-2-amine  (EXP)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
beta-naphthoflavone  (EXP)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
boric acid  (ISO)
butanal  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
carbonyl sulfide  (EXP)
chlordecone  (ISO)
chloropicrin  (ISO)
choline  (ISO)
chrysene  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
Cuprizon  (EXP)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
decabromodiphenyl ether  (EXP)
dexamethasone  (EXP,ISO)
dextran sulfate  (ISO)
dicrotophos  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
ethanol  (ISO)
fenamidone  (ISO)
fenvalerate  (EXP)
fipronil  (EXP)
folic acid  (ISO)
fulvestrant  (ISO)
gossypol  (ISO)
hydrogen peroxide  (ISO)
indometacin  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
menadione  (ISO)
mifepristone  (EXP)
N-nitrosodiethylamine  (EXP)
nitrofen  (EXP)
paracetamol  (ISO)
paraquat  (EXP)
PCB138  (EXP)
perfluorooctanoic acid  (ISO)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
potassium dichromate  (ISO)
resveratrol  (ISO)
retinyl acetate  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
T-2 toxin  (EXP)
tamoxifen  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
triclosan  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
zalcitabine  (EXP)
zinc atom  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:8707838   PMID:9299121   PMID:9396756   PMID:9735344   PMID:10964500   PMID:11507772   PMID:11741585   PMID:11821406   PMID:12051813   PMID:12379663   PMID:12743034   PMID:12921739  
PMID:14557481   PMID:14568553   PMID:15024036   PMID:15895400   PMID:16236823   PMID:16316641   PMID:16365040   PMID:16554364   PMID:16884540   PMID:16886065   PMID:18676816   PMID:18757743  
PMID:19056867   PMID:19199708   PMID:19651211   PMID:20551380   PMID:21099277   PMID:21630459   PMID:22665518   PMID:23376485   PMID:23533145   PMID:23658023   PMID:27068509   PMID:27559042  


Genomics

Comparative Map Data
Lama5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23167,270,296 - 167,318,370 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl3167,270,296 - 167,318,451 (-)Ensembl
Rnor_6.03175,553,042 - 175,601,112 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3175,553,045 - 175,601,127 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03181,517,512 - 181,565,641 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43169,233,897 - 169,282,410 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13169,144,153 - 169,145,258 (-)NCBI
Celera3165,261,840 - 165,309,879 (+)NCBICelera
Cytogenetic Map3q43NCBI
LAMA5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382062,309,065 - 62,367,312 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2062,307,955 - 62,367,312 (-)EnsemblGRCh38hg38GRCh38
GRCh372060,884,121 - 60,942,368 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362060,317,516 - 60,375,763 (-)NCBINCBI36hg18NCBI36
Build 342060,317,515 - 60,375,763NCBI
Celera2057,619,270 - 57,677,579 (-)NCBI
Cytogenetic Map20q13.33NCBI
HuRef2057,659,916 - 57,715,071 (-)NCBIHuRef
CHM1_12060,784,876 - 60,843,394 (-)NCBICHM1_1
T2T-CHM13v2.02064,100,010 - 64,163,029 (-)NCBI
Lama5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392179,818,166 - 179,868,092 (-)NCBIGRCm39mm39
GRCm39 Ensembl2179,818,166 - 179,867,652 (-)Ensembl
GRCm382180,176,373 - 180,225,904 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2180,176,373 - 180,225,859 (-)EnsemblGRCm38mm10GRCm38
MGSCv372179,911,078 - 179,960,564 (-)NCBIGRCm37mm9NCBIm37
MGSCv362180,105,781 - 180,155,267 (-)NCBImm8
Celera2184,258,583 - 184,308,017 (-)NCBICelera
Cytogenetic Map2H4NCBI
cM Map2102.7NCBI
Lama5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555281,713,125 - 1,753,116 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555281,713,110 - 1,753,374 (+)NCBIChiLan1.0ChiLan1.0
LAMA5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12059,991,859 - 60,052,486 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2059,992,130 - 60,055,765 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02058,673,850 - 58,677,760 (-)NCBIMhudiblu_PPA_v0panPan3
LAMA5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12446,315,008 - 46,351,279 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2445,552,009 - 45,597,798 (-)NCBI
ROS_Cfam_1.02447,171,634 - 47,217,418 (-)NCBI
UMICH_Zoey_3.12446,272,834 - 46,318,659 (-)NCBI
UNSW_CanFamBas_1.02446,396,082 - 46,441,995 (-)NCBI
UU_Cfam_GSD_1.02447,150,451 - 47,196,224 (-)NCBI
Lama5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640194,474,591 - 194,519,778 (-)NCBI
SpeTri2.0NW_0049365149,928,234 - 9,973,425 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LAMA5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11761,698,370 - 61,747,795 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LAMA5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.121,872,740 - 1,930,037 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl21,872,832 - 1,929,854 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605049,816,885 - 49,868,098 (+)NCBIVero_WHO_p1.0
Lama5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474128,157,172 - 28,217,113 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462474128,156,956 - 28,217,133 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
RH144643  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23167,298,059 - 167,298,209 (+)MAPPERmRatBN7.2
Rnor_6.03175,580,803 - 175,580,952NCBIRnor6.0
Rnor_5.03181,537,731 - 181,537,880UniSTSRnor5.0
RGSC_v3.43169,261,658 - 169,261,807UniSTSRGSC3.4
Celera3165,281,997 - 165,282,146UniSTS
RH 3.4 Map31526.8UniSTS
Cytogenetic Map3q43UniSTS
RH128438  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23167,270,438 - 167,270,636 (+)MAPPERmRatBN7.2
Rnor_6.03175,553,185 - 175,553,382NCBIRnor6.0
Rnor_5.03181,565,301 - 181,565,498UniSTSRnor5.0
RGSC_v3.43169,234,040 - 169,234,237UniSTSRGSC3.4
Celera3165,309,539 - 165,309,736UniSTS
RH 3.4 Map31525.3UniSTS
Cytogenetic Map3q43UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3122438700167438700Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3127162703168026850Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3137398739169034231Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3138799500169034231Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141074471169034231Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3145526770169034231Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3145956084169034231Rat
1578666Vnigr1Vascular neointimal growth QTL 14.6artery morphology trait (VT:0002191)artery lumen area (CMO:0001409)3149040888168026850Rat
1300161Rf10Renal function QTL 103.57renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)3161192952169034231Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:165
Count of miRNA genes:127
Interacting mature miRNAs:140
Transcripts:ENSRNOT00000008981
Prediction methods:Microtar, 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.


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 31 6 4 4 1 1 4 34 29 11 1
Low 3 12 49 35 19 35 7 10 70 1 12 7
Below cutoff 2 2 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000081226   ⟹   ENSRNOP00000074084
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3167,270,296 - 167,318,451 (-)Ensembl
Rnor_6.0 Ensembl3175,553,045 - 175,601,127 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000102342   ⟹   ENSRNOP00000088314
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3167,270,296 - 167,318,451 (-)Ensembl
RefSeq Acc Id: NM_001191609   ⟹   NP_001178538
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23167,270,296 - 167,318,370 (-)NCBI
Rnor_6.03175,553,042 - 175,601,112 (-)NCBI
Rnor_5.03181,517,512 - 181,565,641 (+)NCBI
Celera3165,261,840 - 165,309,879 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001178538 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAA70093 (Get FASTA)   NCBI Sequence Viewer  
  EDL88819 (Get FASTA)   NCBI Sequence Viewer  
  EDL88820 (Get FASTA)   NCBI Sequence Viewer  
  EDL88821 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001178538   ⟸   NM_001191609
- Peptide Label: precursor
- UniProtKB: F1MAN8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074084   ⟸   ENSRNOT00000081226
RefSeq Acc Id: ENSRNOP00000088314   ⟸   ENSRNOT00000102342
Transcriptome

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

Promoters
RGD ID:13692732
Promoter ID:EPDNEW_R3257
Type:initiation region
Name:Lama5_1
Description:laminin subunit alpha 5
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03175,601,171 - 175,601,231EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 175556173 175556174 G A snv PVG/Seac (2019)
3 175600931 175600932 C T snv MR/N (MCW)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 181562510 181562511 C T snv KFRS3B/Kyo (KyushuU)


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 167273427 167273428 G A snv PVG/Seac (2019)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621023 AgrOrtholog
BioCyc Gene G2FUF-46364 BioCyc
Ensembl Genes ENSRNOG00000053691 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000074084 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000081226 ENTREZGENE, UniProtKB/TrEMBL
InterPro ConA-like_subgrp UniProtKB/TrEMBL
  EGF-like_dom UniProtKB/TrEMBL
  EGF_laminin UniProtKB/TrEMBL
  Laminin_B_type_IV UniProtKB/TrEMBL
  Laminin_G UniProtKB/TrEMBL
  Laminin_I UniProtKB/TrEMBL
  Laminin_II UniProtKB/TrEMBL
  Laminin_N UniProtKB/TrEMBL
KEGG Report rno:140433 UniProtKB/TrEMBL
NCBI Gene 140433 ENTREZGENE
Pfam Laminin_B UniProtKB/TrEMBL
  Laminin_EGF UniProtKB/TrEMBL
  Laminin_G_2 UniProtKB/TrEMBL
  Laminin_I UniProtKB/TrEMBL
  Laminin_II UniProtKB/TrEMBL
  Laminin_N UniProtKB/TrEMBL
PhenoGen Lama5 PhenoGen
PROSITE EGF_1 UniProtKB/TrEMBL
  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 ConA_like_lec_gl UniProtKB/TrEMBL
UniProt F1MAN8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-02 Lama5  laminin subunit alpha 5  Lama5  laminin, alpha 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Lama5  laminin, alpha 5      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Lama5  laminin, alpha 5      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression highly expressed in both normal and the malignant liver epithelial cells 633095
gene_process may have a specific role in development and malignancy 633095