CLEC1B (C-type lectin domain family 1 member B)

Gene: CLEC1B (C-type lectin domain family 1 member B) Sus scrofa

Analyze

Symbol:

CLEC1B

Name:

C-type lectin domain family 1 member B

RGD ID:

14168542

Description:

ENCODES a protein that exhibits carbohydrate binding (inferred); transmembrane signaling receptor activity (inferred); INVOLVED IN platelet formation (ortholog); ASSOCIATED WITH COVID-19 (ortholog); hepatocellular carcinoma (ortholog); FOUND IN cell surface (inferred); membrane (inferred); plasma membrane (inferred)

Type:

protein-coding

RefSeq Status:

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

Sscrofa11.1 - Pig Sscrofa11.1 Assembly

Position:

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	5	61,889,930 - 61,946,340 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	5	61,889,874 - 61,896,964 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	5	64,722,282 - 64,804,288 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

COVID-19 (ISO)

hepatocellular carcinoma (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

platelet formation (IBA,IEA,ISO)

signal transduction (IBA,IEA)

Cellular Component

cell surface (IEA)

membrane (IEA)

plasma membrane (IBA,IEA)

Molecular Function

carbohydrate binding (IEA)

protein binding (ISO)

transmembrane signaling receptor activity (IBA,IEA)

References

Genomics

Comparative Map Data

CLEC1B
(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	61,889,930 - 61,946,340 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	5	61,889,874 - 61,896,964 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	5	64,722,282 - 64,804,288 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CLEC1B
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	12	9,993,075 - 10,001,899 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	12	9,985,642 - 10,013,424 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	12	10,145,674 - 10,154,498 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	12	10,036,927 - 10,043,166 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	12	10,036,930 - 10,043,146	NCBI
Celera	12	15,307,033 - 15,313,278 (-)	NCBI		Celera
Cytogenetic Map	12	p13.31-p13.2	NCBI
HuRef	12	9,888,528 - 9,894,776 (-)	NCBI		HuRef
CHM1_1	12	10,114,968 - 10,121,213 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	12	9,879,239 - 9,888,052 (-)	NCBI		T2T-CHM13v2.0

Clec1b
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	129,374,260 - 129,382,376 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	6	129,374,260 - 129,386,298 (+)	Ensembl		GRCm39 Ensembl
GRCm38	6	129,397,297 - 129,405,413 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	129,397,297 - 129,409,335 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	6	129,347,315 - 129,355,351 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	6	129,362,990 - 129,371,026 (+)	NCBI		MGSCv36	mm8
Celera	6	131,119,212 - 131,127,252 (+)	NCBI		Celera
Cytogenetic Map	6	F3	NCBI
cM Map	6	63.3	NCBI

Clec1b
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	164,533,987 - 164,542,320 (+)	NCBI		GRCr8
mRatBN7.2	4	162,847,978 - 162,856,291 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	162,848,010 - 162,856,291 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	4	169,082,898 - 169,091,109 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	164,865,854 - 164,874,065 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	163,499,904 - 163,508,115 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	163,161,941 - 163,170,470 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	163,162,211 - 163,170,466 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	4	211,806,153 - 211,814,456 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	166,671,432 - 166,679,641 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	4	151,533,490 - 151,541,701 (+)	NCBI		Celera
Cytogenetic Map	4	q42	NCBI

Clec1b
(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_004955413	7,812,552 - 7,819,060 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955413	7,812,750 - 7,821,620 (-)	NCBI	ChiLan1.0	ChiLan1.0

CLEC1B
(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	15,480,625 - 15,518,618 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	12	15,476,162 - 15,515,376 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	12	10,037,928 - 10,045,945 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	12	10,286,839 - 10,294,639 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	12	10,286,838 - 10,293,153 (-)	Ensembl	panpan1.1		panPan2

CLEC1B
(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	35,919,500 - 35,953,852 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	27	35,919,715 - 35,964,350 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	27	10,659,446 - 10,704,289 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	27	36,265,452 - 36,310,548 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	27	36,265,686 - 36,291,508 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	27	36,153,300 - 36,179,509 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	27	36,175,817 - 36,221,143 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	27	10,186,485 - 10,226,204 (+)	NCBI		UU_Cfam_GSD_1.0

Clec1b
(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	97,372,532 - 97,378,800 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936902	504,095 - 510,261 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936902	504,095 - 510,261 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CLEC1B
(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	9,869,686 - 9,875,998 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	11	9,869,768 - 9,875,707 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666089	1,942,133 - 1,950,481 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Variants

Variants in CLEC1B
246 total Variants

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	endocrine system	hemolymphoid system	nervous system
High
Medium
Low			2
Below cutoff	1	1		1

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001315794	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_021091095	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AEMK02000036	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GFLN01045297	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	KJ786417	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSSCT00000026674 ⟹ ENSSSCP00000025784

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1 Ensembl	5	61,889,930 - 61,946,340 (-)	Ensembl

RefSeq Acc Id:

NM_001315794 ⟹ NP_001302723

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1	5	61,889,930 - 61,896,726 (-)	NCBI

Sequence:

show sequence

ATGCAGGATGAAGACGGATATGTCACCTTAAATGTTAAAACTGAAAAACCAGCTCTCACTTCAG
GTGATCCTGCTGCATCCTCTCTGTGGCGTGTGATGGCTTTGACTCTGCTGGTCTTATGCATAGG
GATGGTTTTTGGGCTGGTGGCTCTGGGCATTCTGTCTATCACGCAGCAACACAACCTACGAGCT
GAGAATGAACATCTCTCAGGAACTCTGAAGCAATTAGCAAGGAAGGTCTGCCAAGATTTAATAA
AACAATCAGGACAAGAGGAAAGACATCAGTGCAGCCCATGTGAGAAAAACTGGAGATATCATGG
AGACAGTTGCTATGGATTCTTCAGGCACAACTTGACCTGGGAAGAGAGTAAGAAGTACTGTATC
GACACCAGTGCTACGCTTCTGAAGATCCCCAGCCAGAATATTCTGCAATACCTCACCAGCAGGA
CTGGATTAATCCGTTGGGTTGGATTGTCCCGCCAGAACTCCAAAGAGGCCTGGATGTGGGAAGA
CGGCTCAGTCCCCTCCAAAAATATGATTAAGTTTTCTGGAAATGGAACAGAAAATATGAATTGT
GCTTATTTTCATAATGGAAAAATCCACCCTACCTTCTGTGAGAATAAACATTATTTAATGTGTG
AGAGGAAGGCAGGCATGCCAAAGGTGGACCAACTACTTTAATGCAAAGAGATGG

hide sequence

RefSeq Acc Id:

XM_021091095 ⟹ XP_020946754

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1	5	61,889,874 - 61,896,964 (-)	NCBI

Sequence:

show sequence

CCTTTACCACAAGTTATTATTTTTGTGTTTTTGTGTTTAAGGTCCATGTATCTCTGAGAAGCTA
TTAAAAGGCTTCCTGGAAAGAAAGAAAACCCAAGAAACAAAAAAACCATGTGCCCCATTGCATA
TGGCTCCACCTTACCAGGAAGGATCACAGGCTGGTAGAAATTGAAATCGAAGTAGACCCAACAT
TTTGCAGTCATTGAAGCCTGAGCTCACTTGCAGTCCAAGGAAAGCCATGCAGGATGAAGACGGA
TATGTCACCTTAAATGTTAAAACTGAAAAACCAGCTCTCACTTCAGCTATCACGCAGCAACACA
ACCTACGAGCTGAGAATGAACATCTCTCAGGAACTCTGAAGCAATTAGCAAGGAAGGTCTGCCA
AGATTTAATAAAACAATCAGGACAAGAGGAAAGACATCAGTGCAGCCCATGTGAGAAAAACTGG
AGATATCATGGAGACAGTTGCTATGGATTCTTCAGGCACAACTTGACCTGGGAAGAGAGTAAGA
AGTACTGTATCGACACCAGTGCTACGCTTCTGAAGATCCCCAGCCAGAATATTCTGCAATACCT
CACCAGCAGGACTGGATTAATCCGTTGGGTTGGATTGTCCCGCCAGAACTCCAAAGAGGCCTGG
ATGTGGGAAGACGGCTCAGTCCCCTCCAAAAATGTGATTAAGTTTTCTGGAAATGGAACAGAAA
ATATGAATTGTGCTTATTTTCATAATGGAAAAATCCACCCTACCTTCTGTGAGAATAAACATTA
TTTAATGTGTGAGAGGAAGGCAGGCATGCCAAAGGTGGACCAACTACTTTAATGCAAAGAGATG
GGCAGGATGTCACAGACAAGTGCTTGATTGTATAATAAAAGATCTGGATGAAAGACT

hide sequence

Protein Sequences


Protein RefSeqs	NP_001302723	(Get FASTA)	NCBI Sequence Viewer
	XP_020946754	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AII96813	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSSCP00000025784
	ENSSSCP00000025784.2
	ENSSSCP00005041874.1
	ENSSSCP00015036404.1
	ENSSSCP00025001940.1
	ENSSSCP00030042199.1
	ENSSSCP00035003891.1
	ENSSSCP00040015438.1
	ENSSSCP00045035072.1
	ENSSSCP00050026198.1
	ENSSSCP00055019647.1
	ENSSSCP00060001261.1
	ENSSSCP00065039804.1

RefSeq Acc Id:	XP_020946754 ⟸ XM_021091095
- Peptide Label:	isoform X1
- UniProtKB:	A0A8D0XUJ1 (UniProtKB/TrEMBL), I3LNV9 (UniProtKB/TrEMBL)
- Sequence:	show sequence MQDEDGYVTLNVKTEKPALTSAITQQHNLRAENEHLSGTLKQLARKVCQDLIKQSGQEERHQCS PCEKNWRYHGDSCYGFFRHNLTWEESKKYCIDTSATLLKIPSQNILQYLTSRTGLIRWVGLSRQ NSKEAWMWEDGSVPSKNVIKFSGNGTENMNCAYFHNGKIHPTFCENKHYLMCERKAGMPKVDQL L hide sequence

RefSeq Acc Id:

NP_001302723 ⟸ NM_001315794

- UniProtKB:

A0A076KXE4 (UniProtKB/TrEMBL), A0A8D0PM04 (UniProtKB/TrEMBL), A0A8D0LXQ5 (UniProtKB/TrEMBL), A0A8D1MNE9 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MQDEDGYVTLNVKTEKPALTSGDPAASSLWRVMALTLLVLCIGMVFGLVALGILSITQQHNLRA
ENEHLSGTLKQLARKVCQDLIKQSGQEERHQCSPCEKNWRYHGDSCYGFFRHNLTWEESKKYCI
DTSATLLKIPSQNILQYLTSRTGLIRWVGLSRQNSKEAWMWEDGSVPSKNMIKFSGNGTENMNC
AYFHNGKIHPTFCENKHYLMCERKAGMPKVDQLL

hide sequence

RefSeq Acc Id:

ENSSSCP00000025784 ⟸ ENSSSCT00000026674

Protein Domains

C-type lectin

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSSCG00000000650	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
	ENSSSCG00005041990	UniProtKB/TrEMBL
	ENSSSCG00015066593	UniProtKB/TrEMBL
	ENSSSCG00025003839	UniProtKB/TrEMBL
	ENSSSCG00030065644	UniProtKB/TrEMBL
	ENSSSCG00035009048	UniProtKB/TrEMBL
	ENSSSCG00040027342	UniProtKB/TrEMBL
	ENSSSCG00045029525	UniProtKB/TrEMBL
	ENSSSCG00050044774	UniProtKB/TrEMBL
	ENSSSCG00055012586	UniProtKB/TrEMBL
	ENSSSCG00060003074	UniProtKB/TrEMBL
	ENSSSCG00065066268	UniProtKB/TrEMBL
Ensembl Transcript	ENSSSCT00000026674	ENTREZGENE
	ENSSSCT00000026674.4	UniProtKB/TrEMBL
	ENSSSCT00005067420.1	UniProtKB/TrEMBL
	ENSSSCT00015089265.1	UniProtKB/TrEMBL
	ENSSSCT00025005051.1	UniProtKB/TrEMBL
	ENSSSCT00030091717.1	UniProtKB/TrEMBL
	ENSSSCT00035011383.1	UniProtKB/TrEMBL
	ENSSSCT00040037127.1	UniProtKB/TrEMBL
	ENSSSCT00045050386.1	UniProtKB/TrEMBL
	ENSSSCT00050060948.1	UniProtKB/TrEMBL
	ENSSSCT00055024755.1	UniProtKB/TrEMBL
	ENSSSCT00060003816.1	UniProtKB/TrEMBL
	ENSSSCT00065090948.1	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
	CTDL_fold	UniProtKB/TrEMBL
	NKR-like_CTLD	UniProtKB/TrEMBL
KEGG Report	ssc:100623580	UniProtKB/TrEMBL
NCBI Gene	CLEC1B	ENTREZGENE
PANTHER	C-TYPE LECTIN DOMAIN FAMILY 1 MEMBER B	UniProtKB/TrEMBL
	C-TYPE LECTIN DOMAIN FAMILY 12 MEMBER A-RELATED	UniProtKB/TrEMBL
Pfam	Lectin_C	UniProtKB/TrEMBL
PROSITE	C_TYPE_LECTIN_2	UniProtKB/TrEMBL
SMART	CLECT	UniProtKB/TrEMBL
Superfamily-SCOP	SSF56436	UniProtKB/TrEMBL
UniProt	A0A076KXE4	ENTREZGENE, UniProtKB/TrEMBL
	A0A8D0LXQ5	ENTREZGENE, UniProtKB/TrEMBL
	A0A8D0PM04	ENTREZGENE, UniProtKB/TrEMBL
	A0A8D0XUJ1	ENTREZGENE, UniProtKB/TrEMBL
	A0A8D1MNE9	ENTREZGENE, UniProtKB/TrEMBL
	I3LNV9	ENTREZGENE, UniProtKB/TrEMBL
VGNC ID	VGNC:86751	ENTREZGENE

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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Imported Disease Annotations - CTD