Lypd3 (LY6/PLAUR domain containing 3)

Gene: Lypd3 (LY6/PLAUR domain containing 3) Chinchilla lanigera

Analyze

Symbol:

Lypd3

Name:

LY6/PLAUR domain containing 3

RGD ID:

8763797

Description:

ENCODES a protein that exhibits laminin binding (ortholog); INVOLVED IN cell-matrix adhesion (ortholog); negative regulation of smooth muscle cell apoptotic process (ortholog); ASSOCIATED WITH genetic disease (ortholog); schizophrenia (ortholog); FOUND IN membrane (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

ly6/PLAUR domain-containing protein 3

RGD Orthologs

Alliance Genes

More Info

more info ...

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955555	1,228,879 - 1,234,097 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955555	1,229,559 - 1,233,932 (-)	NCBI	ChiLan1.0	ChiLan1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

schizophrenia (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cell-matrix adhesion (ISO)

negative regulation of smooth muscle cell apoptotic process (ISO)

Cellular Component

membrane (ISO)

Molecular Function

laminin binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Transitive Annotation Pipeline	Automated assignment of GO, PW and RDO ISO annotations across species

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

Lypd3
(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 Ensembl	NW_004955555	1,228,879 - 1,234,097 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955555	1,229,559 - 1,233,932 (-)	NCBI	ChiLan1.0	ChiLan1.0

LYPD3
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	19	43,460,787 - 43,465,608 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	19	43,460,787 - 43,465,608 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	19	43,964,939 - 43,969,760 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	19	48,656,786 - 48,661,671 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	19	48,656,778 - 48,661,648	NCBI
Celera	19	40,765,674 - 40,770,557 (-)	NCBI		Celera
Cytogenetic Map	19	q13.31	NCBI
HuRef	19	40,394,803 - 40,399,686 (-)	NCBI		HuRef
CHM1_1	19	43,966,592 - 43,971,477 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	19	46,281,130 - 46,285,954 (-)	NCBI		T2T-CHM13v2.0

Lypd3
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	7	24,335,995 - 24,340,543 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	7	24,335,975 - 24,340,543 (+)	Ensembl		GRCm39 Ensembl
GRCm38	7	24,636,570 - 24,641,118 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	7	24,636,550 - 24,641,118 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	7	25,421,589 - 25,426,137 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	7	24,345,330 - 24,349,878 (+)	NCBI		MGSCv36	mm8
Celera	7	19,250,477 - 19,255,025 (+)	NCBI		Celera
Cytogenetic Map	7	A3	NCBI
cM Map	7	11.95	NCBI

Lypd3
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	89,354,354 - 89,358,806 (+)	NCBI		GRCr8
mRatBN7.2	1	80,226,449 - 80,230,901 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	80,226,449 - 80,230,901 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	85,618,908 - 85,623,352 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	94,169,886 - 94,174,330 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	87,374,657 - 87,379,095 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	81,499,856 - 81,504,306 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	81,499,821 - 81,504,318 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	82,757,258 - 82,761,708 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	79,917,952 - 79,922,402 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	1	79,996,062 - 80,000,513 (+)	NCBI
Celera	1	74,678,988 - 74,683,438 (+)	NCBI		Celera
Cytogenetic Map	1	q21	NCBI

LYPD3
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	20	49,618,230 - 49,626,686 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	19	51,487,104 - 51,495,564 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	19	40,400,919 - 40,406,756 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	19	49,010,593 - 49,015,489 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	19	49,011,152 - 49,015,381 (-)	Ensembl	panpan1.1		panPan2

LYPD3
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	1	111,634,910 - 111,639,250 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	1	111,634,978 - 111,638,541 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	1	111,114,615 - 111,118,438 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	1	112,245,066 - 112,248,887 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	1	112,245,132 - 112,248,897 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	1	111,833,190 - 111,837,011 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	1	111,466,962 - 111,470,784 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	1	112,351,223 - 112,355,047 (+)	NCBI		UU_Cfam_GSD_1.0

Lypd3
(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_024409349	16,346,360 - 16,350,420 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936706	693,694 - 697,796 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936706	693,703 - 697,714 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LYPD3
(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	50,341,161 - 50,345,338 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	50,341,157 - 50,346,407 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	46,262,470 - 46,267,707 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LYPD3
(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	6	36,976,204 - 36,981,382 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	6	36,976,773 - 36,980,995 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666073	16,515,718 - 16,520,610 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Lypd3
(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_female_1.0 Ensembl	NW_004624907	1,022,500 - 1,028,102 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624907	1,024,083 - 1,028,179 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005412438	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01073066	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AGCD01073067	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBDK01177330	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCLAT00000001761 ⟹ ENSCLAP00000001718

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955555	1,228,879 - 1,234,097 (-)	Ensembl

RefSeq Acc Id:

ENSCLAT00000001762 ⟹ ENSCLAP00000001719

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955555	1,230,072 - 1,233,840 (-)	Ensembl

RefSeq Acc Id:

XM_005412438 ⟹ XP_005412495

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955555	1,229,559 - 1,233,932 (-)	NCBI

Sequence:

show sequence

CGGGGTAGGTTACTCATCCAGGGCTCAGGTAAGAGGGCCCCGGTTGGGAGGCGGCACACCCAGG
GGGGACGCCGAGGGAGCAGGAAGGAGCCATGGACTCCGCCAGGAAAGCAGGTGCCCGGGCCGCG
ATCTGGACCACAGGCTGGCTCCTGTTGTTGCCACTGCTGCTTCGTGAAGGAGCGCTGGCCCTGG
AGTGCTACAGCTGCGTGCAGAAAGCGGACGACGGGTGCTCGCCACAGAAGATGAAGACGGTGAA
GTGCGCGGCGGGCGTGGAAGTCTGCACAGAGGCTGTGGGGGCGGTAGAGACCATCCACGGGCAA
TTCTCGGTGGCGGTGCGGGGCTGTGGCTCGGGACTCCCCGGCAAGAACGACCGTGGACTGGACC
TCCACGGGCTCCTGGCCTTCATCCAGCTGCAGCAGTGCGCCCAGGATCGATGCAACGCCAAGCT
CAACCTCACCTCGCGAGGGCTCAACCCCGCAGGCAATGAGAGCGCGTATCAGGCCAACGGCGCC
GAGTGCTACAGCTGCGTGGGGCTGAGCCACGAGAAGTGTCAGGGCACGGTGCCGCCCGTTGTGA
GCTGCTACAACGCCAGCGACCGCGTCTACAAGGGCTGCTTCGACGGCAACGTCACCTTAATTGC
AGCTAATGTGACTGTGTCCTTGCCCGTCCGGGGCTGTGTCCAAGATGAGTTCTGCACCCGAGAT
GGGGTGACGGGTCCCGGGTTCACACTCAGTGGCTCCTGCTGCCAGGGGCCCCGCTGTAACTCAG
ACCTCCGCAACAAGACCTACTTCTCTCCTCGAATCCCGCCCCTTGTCCTCCTGCCCCCTCCAAC
CACCCCAGCTCCAACCACTCCGGCTCCAACCTCCTCGGTCATCACTTCCACTCCAGCGCCAACT
GCCCTCACCTCTACCACCAAACCCACCCCACCCCCAACCAGCCAGACTCTTCCCCACGACGCAC
AGCCCTCCCAGAAAGATGAGTCAAGGTTGGTTGGAGGTGCAGCTGGCCACCAGGACCGCAGTAA
TGTGGTGCAATACCCTGCAAAAGGTTGGACCACGAAACCCTCAAGTAAAGGCTCTGCAGCTCCT
GGGCTTGGATTGGCAGCTGTGCTGTTGGCTGCGGCTGGTGGTGCCCTCCTATGAGCTTTTCCAC
CTGAAAACTTCCCTCTCACCCTACTTCCCTGGCCCTGGGTACCAACTCTTCCCAGTACTTCCGT
TTCGCACATCTGGACTGGGCTGGCCCAGCCCCCTGTTCTTTTGATGTCCCCAGTATCCCCAGCT
TCTGCTGCACTGGTTTGCGGCTTTGGGAAATAAGAATTACTGTTGTATATATACTGCCAGGGTG
TTCTAGCTTCTTGAGATAGCAGCTGCACCCCTCTCGTGGTGCCCAGGACAGAGTGGGAGAAGTC
CATTGCCCCAGGGAAGGTGGGAGAGTTGCAGAGAAACTTCCCGTTCGCTTTCCCATGGCCAGGT
GGGAATCTGGGAAGTGGGGCAGCAATGGTCCCCGTCTCTCTGTGGGAATTCTGTTCTCTTCTGC
CTTGTTACTAGACTGTGAGCTCCTCCAGGGCAGGGACTGTGCCTTCCACCTCAGCGTGGCCAGA
TGCTGGCACAGAAAGACTTCAATAAAGATTTAATTACTTTGTATGGTGCTTTAAA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005412495	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000001718
	ENSCLAP00000001718.1
	ENSCLAP00000001719.1

RefSeq Acc Id:

XP_005412495 ⟸ XM_005412438

- UniProtKB:

A0A8C2UMT2 (UniProtKB/TrEMBL), A0A8C2UQ43 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MDSARKAGARAAIWTTGWLLLLPLLLREGALALECYSCVQKADDGCSPQKMKTVKCAAGVEVCT
EAVGAVETIHGQFSVAVRGCGSGLPGKNDRGLDLHGLLAFIQLQQCAQDRCNAKLNLTSRGLNP
AGNESAYQANGAECYSCVGLSHEKCQGTVPPVVSCYNASDRVYKGCFDGNVTLIAANVTVSLPV
RGCVQDEFCTRDGVTGPGFTLSGSCCQGPRCNSDLRNKTYFSPRIPPLVLLPPPTTPAPTTPAP
TSSVITSTPAPTALTSTTKPTPPPTSQTLPHDAQPSQKDESRLVGGAAGHQDRSNVVQYPAKGW
TTKPSSKGSAAPGLGLAAVLLAAAGGALL

hide sequence

RefSeq Acc Id:

ENSCLAP00000001719 ⟸ ENSCLAT00000001762

RefSeq Acc Id:

ENSCLAP00000001718 ⟸ ENSCLAT00000001761

Protein Domains

UPAR/Ly6

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000001283	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000001761	ENTREZGENE
	ENSCLAT00000001761.1	UniProtKB/TrEMBL
	ENSCLAT00000001762.1	UniProtKB/TrEMBL
Gene3D-CATH	2.10.60.10	UniProtKB/TrEMBL
InterPro	LY6_UPA_recep-like	UniProtKB/TrEMBL
	Snake_toxin-like_sf	UniProtKB/TrEMBL
NCBI Gene	Lypd3	ENTREZGENE
PANTHER	LY6/PLAUR DOMAIN-CONTAINING PROTEIN 3	UniProtKB/TrEMBL
	UROKINASE PLASMINOGEN ACTIVATOR SURFACE RECEPTOR-RELATED	UniProtKB/TrEMBL
Pfam	UPAR_LY6	UniProtKB/TrEMBL
SMART	SM00134	UniProtKB/TrEMBL
Superfamily-SCOP	SSF57302	UniProtKB/TrEMBL
UniProt	A0A8C2UMT2	ENTREZGENE, UniProtKB/TrEMBL
	A0A8C2UQ43	ENTREZGENE, UniProtKB/TrEMBL

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)

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