Lacc1 (laccase domain containing 1) - Rat Genome Database

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Gene: Lacc1 (laccase domain containing 1) Rattus norvegicus
Analyze
Symbol: Lacc1
Name: laccase domain containing 1
RGD ID: 1310185
Description: Predicted to enable adenosine deaminase activity; copper ion binding activity; and pentosyltransferase activity. Predicted to be involved in several processes, including positive regulation of cytokine production involved in immune response; regulation of cellular pH; and regulation of defense response. Predicted to be located in endoplasmic reticulum; nucleus; and peroxisome. Human ortholog(s) of this gene implicated in juvenile rheumatoid arthritis. Orthologous to human LACC1 (laccase domain containing 1); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC100359875; laccase (multicopper oxidoreductase) domain containing 1; laccase domain-containing protein 1; LOC100359875; LOC313790; purine nucleoside phosphorylase LACC1; RGD1310185; similar to RIKEN cDNA 9030625A04
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
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
GRCr81558,799,477 - 58,816,840 (-)NCBIGRCr8
mRatBN7.21552,390,267 - 52,407,630 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1552,395,183 - 52,407,545 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1556,533,501 - 56,545,915 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01557,651,820 - 57,664,234 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01554,471,165 - 54,483,607 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01559,199,537 - 59,217,200 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1559,209,829 - 59,215,803 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01562,881,963 - 62,899,616 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41558,485,517 - 58,497,172 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11558,501,274 - 58,511,923 (-)NCBI
Celera1552,000,952 - 52,018,611 (-)NCBICelera
Cytogenetic Map15q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. 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.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:27478939   PMID:36610229  


Genomics

Comparative Map Data
Lacc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81558,799,477 - 58,816,840 (-)NCBIGRCr8
mRatBN7.21552,390,267 - 52,407,630 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1552,395,183 - 52,407,545 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1556,533,501 - 56,545,915 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01557,651,820 - 57,664,234 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01554,471,165 - 54,483,607 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01559,199,537 - 59,217,200 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1559,209,829 - 59,215,803 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01562,881,963 - 62,899,616 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41558,485,517 - 58,497,172 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11558,501,274 - 58,511,923 (-)NCBI
Celera1552,000,952 - 52,018,611 (-)NCBICelera
Cytogenetic Map15q11NCBI
LACC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381343,879,178 - 43,893,932 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1343,879,284 - 43,893,932 (+)EnsemblGRCh38hg38GRCh38
GRCh371344,453,314 - 44,468,068 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361343,351,969 - 43,364,438 (+)NCBINCBI36Build 36hg18NCBI36
Celera1325,509,562 - 25,524,213 (+)NCBICelera
Cytogenetic Map13q14.11NCBI
HuRef1325,255,193 - 25,269,831 (+)NCBIHuRef
CHM1_11344,420,991 - 44,435,621 (+)NCBICHM1_1
T2T-CHM13v2.01343,098,039 - 43,112,848 (+)NCBIT2T-CHM13v2.0
Lacc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391477,261,640 - 77,274,344 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1477,261,640 - 77,274,344 (-)EnsemblGRCm39 Ensembl
GRCm381477,021,739 - 77,036,929 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1477,024,200 - 77,036,904 (-)EnsemblGRCm38mm10GRCm38
MGSCv371477,424,008 - 77,436,424 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361475,758,356 - 75,770,772 (-)NCBIMGSCv36mm8
Celera1474,530,246 - 74,545,309 (-)NCBICelera
Cytogenetic Map14D3NCBI
cM Map1440.63NCBI
Lacc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555181,793,352 - 1,805,808 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555181,794,067 - 1,809,150 (+)NCBIChiLan1.0ChiLan1.0
LACC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21443,383,784 - 43,398,826 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11334,467,830 - 34,482,682 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01325,047,306 - 25,063,644 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13198,998,153 - 199,012,974 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3198,998,153 - 199,012,230 (-)Ensemblpanpan1.1panPan2
LACC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1226,824,942 - 7,002,888 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha226,814,398 - 6,995,732 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0227,026,620 - 7,208,242 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl227,181,500 - 7,286,084 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1226,725,413 - 6,907,334 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0226,787,280 - 6,969,201 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0226,794,442 - 6,976,100 (-)NCBIUU_Cfam_GSD_1.0
LACC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1123,141,133 - 23,159,649 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11123,143,708 - 23,159,790 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21123,597,036 - 23,612,028 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LACC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1321,995,405 - 22,008,310 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl321,997,133 - 22,006,418 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605722,006,186 - 22,158,633 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lacc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474811,187,316 - 11,194,841 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474811,150,678 - 11,194,794 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lacc1
152 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:68
Count of miRNA genes:64
Interacting mature miRNAs:65
Transcripts:ENSRNOT00000032295, ENSRNOT00000032301
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.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)152803066582262678Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)152803066582262678Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
2293691Bmd37Bone mineral density QTL 376.60.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)153361105871477291Rat
2293686Bmd36Bone mineral density QTL 367.40.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)153361105871477291Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)153405413979054139Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)154063126898288169Rat
724545Niddm54Non-insulin dependent diabetes mellitus QTL 540.02blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)155079449473699215Rat

Markers in Region
BE096152  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21552,406,331 - 52,406,500 (+)MAPPERmRatBN7.2
Rnor_6.01559,215,607 - 59,215,775NCBIRnor6.0
Rnor_5.01562,898,033 - 62,898,201UniSTSRnor5.0
RGSC_v3.41558,495,986 - 58,496,154UniSTSRGSC3.4
Celera1552,017,018 - 52,017,186UniSTS
RH 3.4 Map15494.11UniSTS
Cytogenetic Map15q11UniSTS


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 15 18 6 20 6
Low 3 43 42 41 1 41 8 10 74 29 21 5 8
Below cutoff 1

Sequence


RefSeq Acc Id: ENSRNOT00000032301   ⟹   ENSRNOP00000036081
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1552,395,183 - 52,407,545 (-)Ensembl
Rnor_6.0 Ensembl1559,209,829 - 59,215,803 (-)Ensembl
RefSeq Acc Id: NM_001399500   ⟹   NP_001386429
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81558,804,393 - 58,816,840 (-)NCBI
mRatBN7.21552,395,183 - 52,407,630 (-)NCBI
RefSeq Acc Id: XM_039094027   ⟹   XP_038949955
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81558,799,477 - 58,816,597 (-)NCBI
mRatBN7.21552,390,267 - 52,407,182 (-)NCBI
RefSeq Acc Id: XM_039094029   ⟹   XP_038949957
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81558,799,477 - 58,816,833 (-)NCBI
mRatBN7.21552,390,267 - 52,407,618 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001386429 (Get FASTA)   NCBI Sequence Viewer  
  XP_038949955 (Get FASTA)   NCBI Sequence Viewer  
  XP_038949957 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM02325 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000036081
  ENSRNOP00000036081.3
RefSeq Acc Id: ENSRNOP00000036081   ⟸   ENSRNOT00000032301
RefSeq Acc Id: XP_038949957   ⟸   XM_039094029
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038949955   ⟸   XM_039094027
- Peptide Label: isoform X1
- UniProtKB: D3ZCD2 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001386429   ⟸   NM_001399500
- UniProtKB: D3ZCD2 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZCD2-F1-model_v2 AlphaFold D3ZCD2 1-430 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310185 AgrOrtholog
BioCyc Gene G2FUF-13035 BioCyc
BioCyc Pathway P121-PWY [adenine and adenosine salvage I] BioCyc
  PWY-4202 [arsenic detoxification (mammals)] BioCyc
  PWY-5695 [inosine 5'-phosphate degradation] BioCyc
  PWY-6608 [guanosine nucleotides degradation III] BioCyc
  PWY-6609 [adenine and adenosine salvage III] BioCyc
  PWY-6620 [guanine and guanosine salvage I] BioCyc
  PWY-7179 [purine deoxyribonucleosides degradation I] BioCyc
  PWY-7179-1 [purine deoxyribonucleosides degradation II] BioCyc
  PWY0-1296 [purine ribonucleosides degradation] BioCyc
  SALVADEHYPOX-PWY [adenosine nucleotides degradation II] BioCyc
  SALVPURINE2-PWY [xanthine and xanthosine salvage] BioCyc
BioCyc Pathway Image P121-PWY BioCyc
  PWY-4202 BioCyc
  PWY-5695 BioCyc
  PWY-6608 BioCyc
  PWY-6609 BioCyc
  PWY-6620 BioCyc
  PWY-7179 BioCyc
  PWY-7179-1 BioCyc
  PWY0-1296 BioCyc
  SALVADEHYPOX-PWY BioCyc
  SALVPURINE2-PWY BioCyc
Ensembl Genes ENSRNOG00000022094 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000032301 ENTREZGENE
  ENSRNOT00000032301.7 UniProtKB/TrEMBL
Gene3D-CATH 3.60.140.10 UniProtKB/TrEMBL
InterPro Cu_polyphenol_OxRdtase_Laccase UniProtKB/TrEMBL
  Cu_polyphenol_OxRdtase_sf UniProtKB/TrEMBL
  Cytotoxic_necrot_fac-like_cat UniProtKB/TrEMBL
KEGG Report rno:313790 UniProtKB/TrEMBL
NCBI Gene 313790 ENTREZGENE
PANTHER PTHR30616 UniProtKB/TrEMBL
  PURINE NUCLEOSIDE PHOSPHORYLASE LACC1 UniProtKB/TrEMBL
Pfam Cu-oxidase_4 UniProtKB/TrEMBL
PhenoGen Lacc1 PhenoGen
RatGTEx ENSRNOG00000022094 RatGTEx
Superfamily-SCOP Cytotoxic_necrot_fac-like_cat UniProtKB/TrEMBL
UniProt D3ZCD2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Lacc1  laccase domain containing 1  Lacc1  laccase (multicopper oxidoreductase) domain containing 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-07-29 Lacc1  laccase (multicopper oxidoreductase) domain containing 1  LOC100359875  hypothetical protein LOC100359875  Data merged from RGD:2323268 737654 PROVISIONAL
2011-09-02 Lacc1  laccase (multicopper oxidoreductase) domain containing 1  RGD1310185  similar to RIKEN cDNA 9030625A04  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-06 LOC100359875  hypothetical protein LOC100359875      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 RGD1310185  similar to RIKEN cDNA 9030625A04   RGD1310185_predicted  similar to RIKEN cDNA 9030625A04 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1310185_predicted  similar to RIKEN cDNA 9030625A04 (predicted)  LOC313790_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC313790_predicted  similar to RIKEN cDNA 9030625A04 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL