Clec12a (C-type lectin domain family 12 member A)

Gene: Clec12a (C-type lectin domain family 12 member A) Ictidomys tridecemlineatus

Analyze

Symbol:

Clec12a

Name:

C-type lectin domain family 12 member A

RGD ID:

12637583

Description:

ENCODES a protein that exhibits signaling receptor regulator activity (inferred); ASSOCIATED WITH cerebral malaria (ortholog); COVID-19 (ortholog); genetic disease (ortholog); FOUND IN membrane (inferred)

Type:

protein-coding

RefSeq Status:

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404945	97,412,004 - 97,424,619 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936902	543,670 - 556,014 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936902	542,981 - 556,142 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

cerebral malaria (ISO)

COVID-19 (ISO)

genetic disease (ISO)

lymphocytic choriomeningitis (ISO)

rheumatoid arthritis (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Cellular Component

membrane (IEA)

Molecular Function

protein binding (ISO)

signaling receptor regulator activity (IEA)

References

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

Clec12a
(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_024404945	97,412,004 - 97,424,619 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936902	543,670 - 556,014 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936902	542,981 - 556,142 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CLEC12A
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	12	9,951,268 - 10,006,150 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	12	9,951,316 - 9,995,694 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	12	10,103,867 - 10,138,194 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	12	10,015,281 - 10,029,461 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	12	15,285,390 - 15,299,566 (+)	NCBI		Celera
Cytogenetic Map	12	p13.31-p13.2	NCBI
HuRef	12	9,846,830 - 9,881,061 (+)	NCBI		HuRef
CHM1_1	12	10,072,931 - 10,107,502 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	12	9,837,492 - 9,892,550 (+)	NCBI		T2T-CHM13v2.0

Clec12a
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	129,327,207 - 129,342,266 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	6	129,319,654 - 129,342,266 (+)	Ensembl		GRCm39 Ensembl
GRCm38	6	129,349,783 - 129,365,303 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	129,342,691 - 129,365,303 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	6	129,300,304 - 129,315,321 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	6	129,315,979 - 129,330,996 (+)	NCBI		MGSCv36	mm8
Celera	6	131,072,396 - 131,087,407 (+)	NCBI		Celera
Cytogenetic Map	6	F3	NCBI
cM Map	6	63.26	NCBI

Clec12a
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	164,484,162 - 164,502,793 (+)	NCBI		GRCr8
mRatBN7.2	4	162,798,125 - 162,816,757 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	162,798,125 - 162,816,753 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	4	169,032,955 - 169,051,584 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	164,815,903 - 164,834,532 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	163,449,952 - 163,468,579 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	163,112,100 - 163,130,979 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	163,112,301 - 163,126,864 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	4	211,756,068 - 211,774,947 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	166,639,429 - 166,639,958 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	4	151,485,182 - 151,502,187 (+)	NCBI		Celera
Cytogenetic Map	4	q42	NCBI

CLEC12A
(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	10	15,441,991 - 15,498,736 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	12	15,438,749 - 15,495,495 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	12	9,999,334 - 10,056,108 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	12	10,248,163 - 10,272,070 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	12	10,248,209 - 10,272,070 (+)	Ensembl	panpan1.1		panPan2

CLEC12A
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	27	36,040,574 - 36,051,249 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	27	36,040,577 - 36,051,184 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	27	10,572,558 - 10,583,206 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	27	36,386,889 - 36,397,598 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	27	36,386,892 - 36,397,560 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	27	36,274,058 - 36,284,680 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	27	36,297,581 - 36,308,213 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	27	10,094,663 - 10,105,311 (+)	NCBI		UU_Cfam_GSD_1.0

CLEC12A
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	5	61,922,895 - 61,937,096 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	5	61,923,057 - 61,936,843 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	5	64,755,594 - 64,769,466 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CLEC12A
(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	11	9,838,867 - 9,858,869 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666089	1,913,397 - 1,933,461 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005341811	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010000004	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSTOT00000009219 ⟹ ENSSTOP00000008270

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936902	543,670 - 556,014 (-)	Ensembl

RefSeq Acc Id:

XM_005341811 ⟹ XP_005341868

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024404945	97,412,004 - 97,424,619 (-)	NCBI
SpeTri2.0	NW_004936902	542,981 - 556,142 (-)	NCBI

Sequence:

show sequence

CTTACGCTTCTAAATTTAAGCCTCAGTTTAGAAGAAGTTTAGTTACAGATCTCACTTAACATTC
AAGGATTAGCTGTCCTGCACCTTTTTAAAAAACACTTTCTCAAATTTTCCTTGAATATTCACCA
ATGTCTGAAGAAATTACTTATGCAAATCTAAAATTCCAGGACTCCAATAAGACAGAAACTACCC
AGGATCTTCAAAAATTGGGGGAAAAAGCACCTTCTGTTCCTTCCCCTCTATGGCGTCAATCAGC
CTTGATCCTGACTCTCCTCTGCCTTCTGCTGCTCATTGGACTGGGAGCCTTGGGAGGCGTATTT
TATAAAACTTTGAAGTTAGAAATGGAAAAACTGAATAAACTGCAAAATATCAAAGAAGAACTTC
AGAGAAATGTTTCCCTCCAACTCATGGATAACAACAGAAGCTCAGAAAATATCAGGAGCCTCTC
TATCACACTGCAAATAGTAGCCACCAAATTGTGTCGTGAGCTATATAGAAAAGAACCAGAGCAC
AAATGTAAACCTTGTCCAAAGGGATGGATATGGTATGGGGATAGCTGTTACATCATACTCAATC
ATTTTGAAACATGGCAAAACAGCGAAATTTTCTGTTCTGCTCGGAATGCCAGTCTGCTGCAAGT
TAGGAACAAAAAAAAATCGCAATCCATAAAATCCTTTCAATTATATGACTTTTGGCTGGGATTA
TCTCCTGGAAATTATCACATGAATGTTGAAAAGCTGGATGACATAATTGCCTCTTCTGCTTGGT
TTAAAAGTAACATAAGTGACTTAAATAATAAGAATTGTGGATATATATATGGACTCTATGTTTA
TTATGTTTCTTGCTCTTCTAAAAAAAAAGTTATGTGTGAGAAGATGGCAAATTCAGTGAAGATT
GAAAGTATATTAATGAGTGAAGATCTAGATGGAAGAATGTAGTCAATGCAATTATTTTGCTAAT
ATCCTGAAATTGATAGGACTTTTGGACAGCATGCATCACATAGATCACACAAGTTGGATAAAAA
TGATATAACTAAATTGCTGCCTCTCTCTTAATATTTATGTTATCAGACTTTCTTCTTTTGCCTT
ATTTGCTGAGTGTAAGGTAATCTAAAACCTTATGTTCTCACCTACATACAGTCCAGATATTGTT
CAGCATAAAGACAGTGTTTCTGGTAAATATAGGAATTTGAAACTAATAGTTTCCTGCTTTTCCA
GAAATAAACCAAGAAAATATCTGTCTTCTAGAAAATCAGAGAAAATTAATATAGGAATAAATGT
AATAATACAATATGAACAATTTTGATTTATTCTAGTAATGTAGATTAATTAAACATTTAAAATG
ATAAAGAAAAAACTATATAGTTTTAATAGATGTACAAAAAGTATTTGTTGATATACAATACACA
ATTATAAAAAAGCTTCTCAGAAAACTAGAAGAATATTTCTGTAACATTATAAAAGAGTGTTGAA
ATAAAACCAAACTTTAAGCAAACAAAAAACTCTAAAGTTTTAATTAACAGTTAACATCATACTT
CTAATAAGAAAATGAAAGTTTTCTTTTGAGTGCTCTGGAACAAGATGAGGATGATCTTTATCAA
AAATTTCATTTAATAAATCCTGTTGTC

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Protein Sequences


Protein RefSeqs	XP_005341868	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000008270.3
GenBank Protein	KAG3292413	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

XP_005341868 ⟸ XM_005341811

- UniProtKB:

I3MD58 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MSEEITYANLKFQDSNKTETTQDLQKLGEKAPSVPSPLWRQSALILTLLCLLLLIGLGALGGVF
YKTLKLEMEKLNKLQNIKEELQRNVSLQLMDNNRSSENIRSLSITLQIVATKLCRELYRKEPEH
KCKPCPKGWIWYGDSCYIILNHFETWQNSEIFCSARNASLLQVRNKKKSQSIKSFQLYDFWLGL
SPGNYHMNVEKLDDIIASSAWFKSNISDLNNKNCGYIYGLYVYYVSCSSKKKVMCEKMANSVKI
ESILMSEDLDGRM

hide sequence

RefSeq Acc Id:

ENSSTOP00000008270 ⟸ ENSSTOT00000009219

Protein Domains

C-type lectin

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000009228	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000009219.3	UniProtKB/TrEMBL
Gene3D-CATH	3.10.100.10	UniProtKB/TrEMBL
InterPro	C-type_lectin-like	UniProtKB/TrEMBL
	C-type_lectin-like/link_sf	UniProtKB/TrEMBL
	CLEC12A/B	UniProtKB/TrEMBL
	CTDL_fold	UniProtKB/TrEMBL
NCBI Gene	Clec12a	ENTREZGENE
PANTHER	C-TYPE LECTIN DOMAIN FAMILY 12, MEMBER A	UniProtKB/TrEMBL
	PTHR47647	UniProtKB/TrEMBL
SMART	CLECT	UniProtKB/TrEMBL
Superfamily-SCOP	SSF56436	UniProtKB/TrEMBL
UniProt	I3MD58	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)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD