Lamb1 (laminin subunit beta 1) - Rat Genome Database
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Gene: Lamb1 (laminin subunit beta 1) Rattus norvegicus
Analyze
Symbol: Lamb1
Name: laminin subunit beta 1
RGD ID: 1306311
Description: Predicted to have several functions, including extracellular matrix structural constituent; glycosphingolipid binding activity; and integrin binding activity. Predicted to be involved in several processes, including embryo implantation; neurogenesis; and substrate adhesion-dependent cell spreading. Localizes to collagen-containing extracellular matrix. Human ortholog(s) of this gene implicated in autistic disorder and lissencephaly. Orthologous to human LAMB1 (laminin subunit beta 1); INTERACTS WITH 3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine; 6alpha-methylprednisolone; bisphenol A.
Type: protein-coding
RefSeq Status: MODEL
Also known as: Lamb1-1; laminin B1 subunit 1; laminin subunit beta-1; laminin, beta 1; LOC298941
Orthologs:
Homo sapiens (human) : LAMB1 (laminin subunit beta 1)  HGNC  Alliance
Mus musculus (house mouse) : Lamb1 (laminin B1)  MGI  Alliance
Chinchilla lanigera (long-tailed chinchilla) : Lamb1 (laminin subunit beta 1)
Pan paniscus (bonobo/pygmy chimpanzee) : LAMB1 (laminin subunit beta 1)
Canis lupus familiaris (dog) : LAMB1 (laminin subunit beta 1)
Ictidomys tridecemlineatus (thirteen-lined ground squirrel) : Lamb1 (laminin subunit beta 1)
Sus scrofa (pig) : LAMB1 (laminin subunit beta 1)
Chlorocebus sabaeus (African green monkey) : LAMB1 (laminin subunit beta 1)
Heterocephalus glaber (naked mole-rat) : Lamb1 (laminin subunit beta 1)
more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0650,528,796 - 50,596,593 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl650,528,823 - 50,596,079 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0659,204,031 - 59,271,336 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4649,115,671 - 49,183,374 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1649,109,263 - 49,186,072 (+)NCBI
Celera647,038,296 - 47,105,077 (+)NCBICelera
Cytogenetic Map6q16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-nicotine  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-amino-2-deoxy-D-glucopyranose  (ISO)
3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
6alpha-methylprednisolone  (EXP)
acetic acid  (ISO)
aldehydo-D-glucosamine  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
atrazine  (ISO)
bazedoxifene  (ISO)
benzo[a]pyrene  (ISO)
beta-D-glucosamine  (ISO)
bilirubin IXalpha  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bromochloroacetic acid  (ISO)
butanal  (ISO)
caffeine  (ISO)
carbamazepine  (ISO)
chloropicrin  (ISO)
chloroquine  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
chrysene  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
cocaine  (ISO)
cyclosporin A  (ISO)
D-glucose  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
dieldrin  (EXP)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
enalapril  (EXP)
ethyl methanesulfonate  (ISO)
fenamidone  (ISO)
folic acid  (ISO)
genistein  (ISO)
glucose  (ISO)
griseofulvin  (ISO)
hexadecanoic acid  (ISO)
hydrogen peroxide  (ISO)
isoprenaline  (ISO)
ketamine  (EXP)
L-methionine  (ISO)
lactacystin  (ISO)
methyl methanesulfonate  (ISO)
methylmercury(1+)  (ISO)
miconazole  (ISO)
mitoxantrone  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
nicotine  (ISO)
ochratoxin A  (ISO)
oleic acid  (ISO)
oxaliplatin  (EXP)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
potassium chromate  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium dodecyl sulfate  (ISO)
sunitinib  (ISO)
tert-butyl hydroperoxide  (ISO)
thapsigargin  (ISO)
topotecan  (EXP)
Tributyltin oxide  (ISO)
triclosan  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
zinc atom  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)


Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:1292752   PMID:2099832   PMID:7639691   PMID:8034675   PMID:9004048   PMID:9264260   PMID:9299121   PMID:9396756   PMID:10444590   PMID:10964500   PMID:12631063   PMID:12743034  
PMID:14557481   PMID:15102706   PMID:15207330   PMID:15474030   PMID:15894315   PMID:15895400   PMID:16041630   PMID:16236823   PMID:16289578   PMID:16554364   PMID:16631359   PMID:18691079  
PMID:18757743   PMID:19118221   PMID:20301201   PMID:21362503   PMID:21849984   PMID:23154389   PMID:23472759   PMID:23658023   PMID:24006456   PMID:27068509   PMID:27559042   PMID:30361391  


Genomics

Comparative Map Data
Lamb1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0650,528,796 - 50,596,593 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl650,528,823 - 50,596,079 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0659,204,031 - 59,271,336 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4649,115,671 - 49,183,374 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1649,109,263 - 49,186,072 (+)NCBI
Celera647,038,296 - 47,105,077 (+)NCBICelera
Cytogenetic Map6q16NCBI
LAMB1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl7107,923,799 - 108,003,187 (-)EnsemblGRCh38hg38GRCh38
GRCh387107,923,799 - 108,003,176 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh377107,564,244 - 107,643,804 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 367107,351,499 - 107,431,040 (-)NCBINCBI36hg18NCBI36
Build 347107,158,213 - 107,237,755NCBI
Celera7102,371,233 - 102,450,770 (-)NCBI
Cytogenetic Map7q31.1NCBI
HuRef7101,926,690 - 102,006,298 (-)NCBIHuRef
CHM1_17107,497,967 - 107,577,516 (-)NCBICHM1_1
CRA_TCAGchr7v27106,925,375 - 107,004,933 (-)NCBI
Lamb1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391231,315,230 - 31,379,643 (+)NCBI
GRCm381231,265,146 - 31,329,644 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1231,265,234 - 31,329,644 (+)EnsemblGRCm38mm10GRCm38
MGSCv371231,950,159 - 32,014,504 (+)NCBIGRCm37mm9NCBIm37
MGSCv361231,851,443 - 31,915,700 (+)NCBImm8
Celera1232,713,386 - 32,777,732 (+)NCBICelera
Cytogenetic Map12A2NCBI
cM Map1213.39NCBI
Lamb1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541012,241,235 - 12,305,433 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541012,241,235 - 12,305,433 (-)NCBIChiLan1.0ChiLan1.0
LAMB1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.17112,627,488 - 112,706,554 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7112,627,488 - 112,706,554 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0799,905,761 - 99,985,233 (-)NCBI
LAMB1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1812,630,554 - 12,700,308 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11812,634,640 - 12,700,311 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Lamb1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493647916,177,200 - 16,245,268 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LAMB1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9107,671,152 - 107,772,269 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19107,670,120 - 107,747,242 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29118,440,049 - 118,515,695 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LAMB1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl2176,829,443 - 76,914,324 (-)Ensembl
ChlSab1.12176,829,287 - 76,914,348 (-)NCBI
Lamb1
(Heterocephalus glaber - naked mole-rat)
No map positions available.

Position Markers
RH126801  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0650,542,059 - 50,542,367NCBIRnor6.0
Rnor_5.0659,217,286 - 59,217,594UniSTSRnor5.0
RGSC_v3.4649,128,881 - 49,129,189UniSTSRGSC3.4
Celera647,051,556 - 47,051,864UniSTS
Cytogenetic Map6q16UniSTS
RH137828  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0650,595,863 - 50,596,009NCBIRnor6.0
Rnor_5.0659,271,090 - 59,271,236UniSTSRnor5.0
RGSC_v3.4649,182,851 - 49,182,997UniSTSRGSC3.4
Celera647,104,347 - 47,104,493UniSTS
Cytogenetic Map6q16UniSTS
UniSTS:236828  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0650,592,927 - 50,593,063NCBIRnor6.0
Rnor_5.0659,268,154 - 59,268,290UniSTSRnor5.0
RGSC_v3.4649,179,922 - 49,180,058UniSTSRGSC3.4
Celera647,101,423 - 47,101,559UniSTS
Cytogenetic Map6q16UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6175623393Rat
1354664Slep2Serum leptin concentration QTL 24.49blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)6112039375023446Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)62537030111715717Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)6616172276002731Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)6616172276002731Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)percentage of deaths in a study population during a period of time (CMO:0001024)67009971115379601Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)71017386255173862Rat
1300164Rf15Renal function QTL 153.12renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)61312295857516539Rat
10401812Kidm54Kidney mass QTL 54kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61681010761810107Rat
10401800Kidm49Kidney mass QTL 49kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61681010761810107Rat
8552910Pigfal5Plasma insulin-like growth factor 1 level QTL 54.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)61941788764417887Rat
1641898Colcr4Colorectal carcinoma resistance QTL43.710.0007intestine integrity trait (VT:0010554)well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)62151530265784818Rat
2293839Kiddil2Kidney dilation QTL 24.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62204285484763421Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62204285484763421Rat
8693632Alc27Alcohol consumption QTL 272.20.791drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)63425776653855198Rat
1300143Rf14Renal function QTL 142.92renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)63436743680490628Rat
1331779Rf38Renal function QTL 382.876kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)63499565675623393Rat
634318Bw118Body weight QTL 1183.55abdominal fat pad mass (VT:1000711)abdominal fat pad weight (CMO:0000088)63626028860606186Rat
6893340Cm77Cardiac mass QTL 770.260.57heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)63626028884763275Rat
1354632Scl29Serum cholesterol level QTL 293.74blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)63760898075023446Rat
634307Bp141Blood pressure QTL 1414arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)63810630883106308Rat
70199Coreg1Compensatory renal growth QTL 111.8kidney mass (VT:0002707)compensatory renal growth score (CMO:0001894)63819641260606431Rat
9590290Uminl2Urine mineral level QTL 23.960.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)64167904686679046Rat
9590306Scort18Serum corticosterone level QTL 182.880.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)64167904686679046Rat
9590140Scort4Serum corticosterone level QTL 414.490.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)64167904686679046Rat
634330Pia16Pristane induced arthritis QTL 163.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)648432758108268790Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:91
Count of miRNA genes:76
Interacting mature miRNAs:87
Transcripts:ENSRNOT00000008321
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 32 16 19 16 8 11 70 35 35 11 8
Low 25 25 25 4 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000008321   ⟹   ENSRNOP00000008321
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl650,528,823 - 50,596,079 (+)Ensembl
RefSeq Acc Id: XM_003750137   ⟹   XP_003750185
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0650,528,804 - 50,596,593 (+)NCBI
Rnor_5.0659,204,031 - 59,271,336 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006239996   ⟹   XP_006240058
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0650,528,796 - 50,596,593 (+)NCBI
Rnor_5.0659,204,031 - 59,271,336 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006239997   ⟹   XP_006240059
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0650,528,804 - 50,596,593 (+)NCBI
Rnor_5.0659,204,031 - 59,271,336 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017603162   ⟹   XP_017458651
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera647,038,296 - 47,105,077 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_003750185 (Get FASTA)   NCBI Sequence Viewer  
  XP_006240058 (Get FASTA)   NCBI Sequence Viewer  
  XP_006240059 (Get FASTA)   NCBI Sequence Viewer  
  XP_017458651 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM03247 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_003750185   ⟸   XM_003750137
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006240058   ⟸   XM_006239996
- Peptide Label: isoform X2
- UniProtKB: D3ZQN7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006240059   ⟸   XM_006239997
- Peptide Label: isoform X2
- UniProtKB: D3ZQN7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017458651   ⟸   XM_017603162
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSRNOP00000008321   ⟸   ENSRNOT00000008321
Transcriptome

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

Promoters
RGD ID:13694550
Promoter ID:EPDNEW_R5065
Type:initiation region
Name:Lamb1_1
Description:laminin subunit beta 1
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_6.0650,528,852 - 50,528,912EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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

Database Acc Id Source(s)
AGR Gene RGD:1306311 AgrOrtholog
Ensembl Genes ENSRNOG00000005678 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000008321 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000008321 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.1490 UniProtKB/TrEMBL
InterPro EGF-like_dom UniProtKB/TrEMBL
  EGF_laminin UniProtKB/TrEMBL
  Laminin_IV UniProtKB/TrEMBL
  Laminin_N UniProtKB/TrEMBL
  Laminin_N_sf UniProtKB/TrEMBL
NCBI Gene 298941 ENTREZGENE
Pfam Laminin_EGF UniProtKB/TrEMBL
  Laminin_N UniProtKB/TrEMBL
PhenoGen Lamb1 PhenoGen
PROSITE EGF_LAM_1 UniProtKB/TrEMBL
  EGF_LAM_2 UniProtKB/TrEMBL
  LAMININ_IVB UniProtKB/TrEMBL
  LAMININ_NTER UniProtKB/TrEMBL
SMART EGF UniProtKB/TrEMBL
  EGF_Lam UniProtKB/TrEMBL
  LamNT UniProtKB/TrEMBL
UniProt D3ZQN7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-02 Lamb1  laminin subunit beta 1  Lamb1  laminin, beta 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-04 Lamb1  laminin, beta 1  Lamb1_predicted  laminin, beta 1 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Lamb1_predicted  laminin, beta 1 (predicted)  Lamb1-1_predicted  laminin B1 subunit 1 (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-12 Lamb1-1_predicted  laminin B1 subunit 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED

 



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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.