LACRT (lacritin) - Rat Genome Database

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Gene: LACRT (lacritin) Homo sapiens
Analyze
Symbol: LACRT
Name: lacritin
RGD ID: 1344511
HGNC Page HGNC:16430
Description: Enables collagen binding activity; growth factor activity; and laminin-1 binding activity. Involved in several processes, including calcineurin-NFAT signaling cascade; positive regulation of transport; and regulation of signal transduction. Located in extracellular region and secretory granule.
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: extracellular glycoprotein lacritin; MGC71934
RGD Orthologs
Bonobo
Dog
Green Monkey
Alliance Orthologs
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381254,630,811 - 54,634,895 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1254,630,811 - 54,634,895 (-)EnsemblGRCh38hg38GRCh38
GRCh371255,024,595 - 55,028,679 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361253,310,890 - 53,314,930 (-)NCBINCBI36Build 36hg18NCBI36
Build 341253,310,889 - 53,314,930NCBI
Celera1254,676,508 - 54,680,548 (-)NCBICelera
Cytogenetic Map12q13.2NCBI
HuRef1252,063,224 - 52,067,263 (-)NCBIHuRef
CHM1_11254,991,349 - 54,995,389 (-)NCBICHM1_1
T2T-CHM13v2.01254,597,424 - 54,601,507 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11419941   PMID:12477932   PMID:12613904   PMID:14574570   PMID:15489334   PMID:15851553   PMID:15952718   PMID:16488965   PMID:16740002   PMID:16865190   PMID:16923831   PMID:16982797  
PMID:17207965   PMID:17850790   PMID:18334948   PMID:18840430   PMID:19714880   PMID:19770725   PMID:20375347   PMID:21832049   PMID:21873635   PMID:22664934   PMID:22736608   PMID:22871838  
PMID:22918641   PMID:22956620   PMID:23272196   PMID:23308132   PMID:23422824   PMID:23425695   PMID:23482462   PMID:23504321   PMID:23580065   PMID:23640897   PMID:23748026   PMID:23769845  
PMID:24163370   PMID:24550385   PMID:24942736   PMID:25034600   PMID:25481446   PMID:25530855   PMID:26186194   PMID:26485645   PMID:26670139   PMID:27432908   PMID:27705803   PMID:28419103  
PMID:28514442   PMID:28977666   PMID:29509190   PMID:30884312   PMID:31586073   PMID:32274735   PMID:32707033   PMID:33187980   PMID:33961781   PMID:34445801   PMID:35833506   PMID:37314216  


Genomics

Comparative Map Data
LACRT
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381254,630,811 - 54,634,895 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1254,630,811 - 54,634,895 (-)EnsemblGRCh38hg38GRCh38
GRCh371255,024,595 - 55,028,679 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361253,310,890 - 53,314,930 (-)NCBINCBI36Build 36hg18NCBI36
Build 341253,310,889 - 53,314,930NCBI
Celera1254,676,508 - 54,680,548 (-)NCBICelera
Cytogenetic Map12q13.2NCBI
HuRef1252,063,224 - 52,067,263 (-)NCBIHuRef
CHM1_11254,991,349 - 54,995,389 (-)NCBICHM1_1
T2T-CHM13v2.01254,597,424 - 54,601,507 (-)NCBIT2T-CHM13v2.0
LACRT
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21039,539,653 - 39,543,927 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11239,536,422 - 39,540,696 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01234,112,452 - 34,116,737 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11234,840,543 - 34,844,620 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1234,840,543 - 34,844,620 (+)Ensemblpanpan1.1panPan2
LACRT
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.127735,639 - 738,355 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2745,516,138 - 45,518,894 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.027732,457 - 735,184 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.127726,395 - 729,103 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.027735,469 - 738,189 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02745,920,869 - 45,923,598 (-)NCBIUU_Cfam_GSD_1.0
LACRT
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11150,746,437 - 50,752,631 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666037195,285,792 - 195,290,124 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in LACRT
9 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
NM_033277.1(LACRT):c.384G>A (p.Leu128=) single nucleotide variant Malignant melanoma [RCV000070081] Chr12:54630925 [GRCh38]
Chr12:55024709 [GRCh37]
Chr12:53310976 [NCBI36]
Chr12:12q13.2		 not provided
GRCh38/hg38 12p13.33-q24.33(chr12:121271-133196807)x3 copy number gain See cases [RCV000139555] Chr12:121271..133196807 [GRCh38]
Chr12:282465..133773393 [GRCh37]
Chr12:100698..132283466 [NCBI36]
Chr12:12p13.33-q24.33		 pathogenic
GRCh38/hg38 12q13.13-13.3(chr12:53420606-56202942)x3 copy number gain See cases [RCV000141435] Chr12:53420606..56202942 [GRCh38]
Chr12:53814390..56596726 [GRCh37]
Chr12:52100657..54882993 [NCBI36]
Chr12:12q13.13-13.3		 pathogenic
GRCh37/hg19 12p13.33-q24.33(chr12:1-133851895)x3 copy number gain See cases [RCV000258805] Chr12:1..133851895 [GRCh37]
Chr12:12p13.33-q24.33		 pathogenic|likely pathogenic
GRCh37/hg19 12p13.33-q24.33(chr12:173787-133777902)x3 copy number gain See cases [RCV000510482] Chr12:173787..133777902 [GRCh37]
Chr12:12p13.33-q24.33		 pathogenic
GRCh37/hg19 12p13.33-q24.33(chr12:173787-133777902) copy number gain See cases [RCV000511643] Chr12:173787..133777902 [GRCh37]
Chr12:12p13.33-q24.33		 pathogenic
NM_033277.2(LACRT):c.224C>T (p.Thr75Ile) single nucleotide variant not specified [RCV004303078] Chr12:54632270 [GRCh38]
Chr12:55026054 [GRCh37]
Chr12:12q13.2		 uncertain significance
GRCh37/hg19 12p13.33-q24.33(chr12:621220-133779118)x3 copy number gain not provided [RCV000750253] Chr12:621220..133779118 [GRCh37]
Chr12:12p13.33-q24.33		 pathogenic
GRCh37/hg19 12p13.33-q24.33(chr12:191619-133777645)x3 copy number gain not provided [RCV000750246] Chr12:191619..133777645 [GRCh37]
Chr12:12p13.33-q24.33		 pathogenic
NM_033277.2(LACRT):c.318G>T (p.Met106Ile) single nucleotide variant not specified [RCV004143815] Chr12:54631775 [GRCh38]
Chr12:55025559 [GRCh37]
Chr12:12q13.2		 uncertain significance
NM_033277.2(LACRT):c.43G>T (p.Ala15Ser) single nucleotide variant not specified [RCV004226675] Chr12:54634799 [GRCh38]
Chr12:55028583 [GRCh37]
Chr12:12q13.2		 uncertain significance
NM_033277.2(LACRT):c.101A>G (p.Glu34Gly) single nucleotide variant not specified [RCV004259420] Chr12:54633191 [GRCh38]
Chr12:55026975 [GRCh37]
Chr12:12q13.2		 uncertain significance
NM_033277.2(LACRT):c.265G>A (p.Glu89Lys) single nucleotide variant not specified [RCV004336176] Chr12:54631828 [GRCh38]
Chr12:55025612 [GRCh37]
Chr12:12q13.2		 uncertain significance
NM_033277.2(LACRT):c.191C>T (p.Ser64Leu) single nucleotide variant not specified [RCV004407137] Chr12:54632303 [GRCh38]
Chr12:55026087 [GRCh37]
Chr12:12q13.2		 uncertain significance
NM_033277.2(LACRT):c.31G>A (p.Ala11Thr) single nucleotide variant not specified [RCV004407138] Chr12:54634811 [GRCh38]
Chr12:55028595 [GRCh37]
Chr12:12q13.2		 uncertain significance
NM_033277.2(LACRT):c.334G>C (p.Gly112Arg) single nucleotide variant not specified [RCV004407139] Chr12:54631759 [GRCh38]
Chr12:55025543 [GRCh37]
Chr12:12q13.2		 uncertain significance
NM_033277.2(LACRT):c.160C>G (p.Pro54Ala) single nucleotide variant not specified [RCV004633804] Chr12:54632334 [GRCh38]
Chr12:55026118 [GRCh37]
Chr12:12q13.2		 uncertain significance
NM_033277.2(LACRT):c.279A>T (p.Leu93Phe) single nucleotide variant not specified [RCV004639823] Chr12:54631814 [GRCh38]
Chr12:55025598 [GRCh37]
Chr12:12q13.2		 uncertain significance
NM_033277.2(LACRT):c.317T>G (p.Met106Arg) single nucleotide variant not specified [RCV004639825] Chr12:54631776 [GRCh38]
Chr12:55025560 [GRCh37]
Chr12:12q13.2		 uncertain significance
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:458
Count of miRNA genes:282
Interacting mature miRNAs:298
Transcripts:ENST00000257867, ENST00000546721, ENST00000547511, ENST00000549816
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

adipose tissue
alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
pharyngeal arch
renal system
reproductive system
respiratory system
sensory system
visual system
111 106 734 133 1093 60 85 95 72 8 1029 343 359 9 170 1 53 209 66 85 1

Sequence


Ensembl Acc Id: ENST00000257867   ⟹   ENSP00000257867
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1254,630,811 - 54,634,895 (-)Ensembl
Ensembl Acc Id: ENST00000546721   ⟹   ENSP00000448193
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1254,630,811 - 54,633,201 (-)Ensembl
Ensembl Acc Id: ENST00000547511   ⟹   ENSP00000447536
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1254,630,811 - 54,634,880 (-)Ensembl
Ensembl Acc Id: ENST00000549816
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1254,631,927 - 54,634,887 (-)Ensembl
RefSeq Acc Id: NM_033277   ⟹   NP_150593
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381254,630,811 - 54,634,895 (-)NCBI
GRCh371255,024,623 - 55,028,663 (-)ENTREZGENE
Build 361253,310,890 - 53,314,930 (-)NCBI Archive
HuRef1252,063,224 - 52,067,263 (-)ENTREZGENE
CHM1_11254,991,349 - 54,995,389 (-)NCBI
T2T-CHM13v2.01254,597,424 - 54,601,507 (-)NCBI
Sequence:
RefSeq Acc Id: NP_150593   ⟸   NM_033277
- Peptide Label: precursor
- UniProtKB: Q9GZZ8 (UniProtKB/Swiss-Prot),   F8W0V3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSP00000257867   ⟸   ENST00000257867
Ensembl Acc Id: ENSP00000448193   ⟸   ENST00000546721
Ensembl Acc Id: ENSP00000447536   ⟸   ENST00000547511

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9GZZ8-F1-model_v2 AlphaFold Q9GZZ8 1-138 view protein structure

Promoters
RGD ID:7224275
Promoter ID:EPDNEW_H17883
Type:multiple initiation site
Name:LACRT_1
Description:lacritin
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh381254,634,895 - 54,634,955EPDNEW

Additional Information

Database Acc Id Source(s)
COSMIC LACRT COSMIC
Ensembl Genes ENSG00000135413 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENST00000257867 ENTREZGENE
  ENST00000257867.5 UniProtKB/Swiss-Prot
  ENST00000546721.5 UniProtKB/TrEMBL
  ENST00000547511.5 UniProtKB/TrEMBL
GTEx ENSG00000135413 GTEx
HGNC ID HGNC:16430 ENTREZGENE
Human Proteome Map LACRT Human Proteome Map
InterPro Dermcidin/Lacritin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report hsa:90070 UniProtKB/Swiss-Prot
NCBI Gene 90070 ENTREZGENE
OMIM 607360 OMIM
PANTHER PTHR40711 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR40711:SF2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PA30261 PharmGKB
UniProt F8W0V3 ENTREZGENE, UniProtKB/TrEMBL
  H0YI00_HUMAN UniProtKB/TrEMBL
  LACRT_HUMAN UniProtKB/Swiss-Prot, ENTREZGENE