XCL2 Gene
protein-coding GIFtS: 48
GCID: GC01M168510
|
|
chemokine (C motif) ligand 2(Previous names: small inducible cytokine subfamily C, member 2 )
(Previous symbol: SCYC2)
| |
Aliases
for XCL2 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Chemokine (C Motif) Ligand 21 2 | | C Motif Chemokine 22 3 | | SCYC21 2 3 5 | | XC Chemokine Ligand 22 3 | | SCM-1b1 2 | | SCM1B2 5 | | Small Inducible Cytokine Subfamily C, Member 21 2 | | Cytokine SCM-1 Beta2 |
Export aliases for XCL2 gene to outside databasesPrevious GC identifers: GC01M166145 GC01M164161 GC01M165206 GC01M165697 GC01M165242 GC01M166776 GC01M139756 |
Summaries
for XCL2 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
UniProtKB/Swiss-Prot: XCL2_HUMAN, Q9UBD3Function: Chemotactic activity for lymphocytes but not for monocytes or neutrophils (By similarity)
|
Genomic Views
for XCL2 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000001.10 NC_018912.1 NT_004487.19
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the XCL2 gene promoter:
SRF HFH-3 C/EBPbeta AML1a E47 GATA-2 FOXI1 c-Myb
Other transcription factors
Search SABiosciences Chromatin IP Primers for XCL2
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat XCL2 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 1q24.2 Ensembl cytogenetic band: 1q24.2 HGNC cytogenetic band: 1q24.2XCL2 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 1 GeneLoc Exon Structure GeneLoc location for GC01M168510: view genomic region
(about GC identifiers)
Start:
|
168,510,003 bp from pter |
End:
|
168,513,235 bp from pter |
Size:
|
3,233 bases |
Orientation:
|
minus strand |
|
Proteins
for XCL2 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: XCL2_HUMAN, Q9UBD3 (See
protein sequence)Recommended Name: Cytokine SCM-1 beta precursor Size: 114 amino acids; 12567 Da
Subcellular location: SecretedExplore the universe of human proteins at neXtProt for XCL2: NX_Q9UBD3
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q9UBD3
XCL2 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_003166.1
ENSEMBL proteins: ENSP00000356793 Reactome Protein details: Q9UBD3
Human Recombinant Protein Products:
Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005576 | extracellular region |
TAS | -- | | GO:0005615 | extracellular space |
IEA | -- |
XCL2 for ontologies About GeneDecksing
XCL2 Antibody Products:
Assay Products for XCL2: |
Protein
Domains /
Families
for XCL2 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
XCL2 for domains About GeneDecksing
2 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q9UBD3ProtoNet protein and cluster: Q9UBD3 1 Blocks protein family: IPB008105 Lymphotactin precursor signature
UniProtKB/Swiss-Prot: XCL2_HUMAN, Q9UBD3Similarity: Belongs to the intercrine gamma family |
Function
for XCL2 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: XCL2_HUMAN, Q9UBD3Function: Chemotactic activity for lymphocytes but not for monocytes or neutrophils (By similarity)
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for XCL2
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for XCL2
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: XCL2 (NM_002089) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for XCL2 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat XCL2 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for XCL2 |
Gene Ontology (GO): 1 molecular function term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0008009 | chemokine activity |
IEA | -- |
XCL2 for ontologies About GeneDecksing
1 GenomeRNAi human phenotype for XCL2:
|
Pathways & Interactions
for XCL2 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Unified GeneCards pathways - 5/7 super-pathways (see all 7) About this table
See pathways by source
| Super-pathway | contained gene-specific pathways |
|---|
| 1 | Class A/1 (Rhodopsin-like receptors) | | | 2 | Signaling by GPCR | | | 3 | G alpha (q) signalling events | | | 4 | Chemokine Signaling | | | 5 | Chemokine receptors bind chemokines | |
Pathway sources
See GeneCards unified pathways
Show all pathways
2 Downloadable PowerPoint Slides of QIAGEN Pathway Central Maps for XCL2
5/9 
Reactome Pathways for XCL2 (see all 9)
2 
Kegg Pathways (Kegg details for XCL2):
XCL2 for pathways About GeneDecksing
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for XCL2
STRING Interaction
Network Preview (showing 5 interactants - click image to see 18)
5/18 Interacting proteins for XCL2 (Q9UBD33 ENSP000003567934) via UniProtKB, MINT, STRING, and/or I2D (see all 18)About this table
Gene Ontology (GO): 4 biological process terms (GO ID links to tree view): About this table
XCL2 for ontologies About GeneDecksing
|
Drugs & Compounds
for XCL2 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for XCL2
Search CenterWatch for drugs/clinical trials and news about XCL2
|
Transcripts
for XCL2 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for XCL2 gene: NM_003175.3 Unigene Cluster for XCL2: Chemokine (C motif) ligand 2 Hs.458346 [show with all ESTs]Unigene Representative Sequence: BC0703081 Ensembl transcript including schematic representation, and UCSC links where relevant: ENST00000367819(uc001gfn.4)
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for XCL2
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for XCL2
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: XCL2 (NM_002089) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for XCL2 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat XCL2 |
Additional cDNA sequence: BC069360.1 BC070308.1 4 DOTS entries: DT.100735017 DT.305525 DT.109036 DT.91854396 14 AceView cDNA sequences: AI057377 NM_003175 BC069360 CD521967 BE218461 BC070308 U23772 AW050525 AW467190 AA650495 AI821666 AI915168 AA420635 AA420679
GeneLoc Exon Structure
|
Expression
for XCL2 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| XCL2 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
See XCL2 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for XCL2
SOURCE GeneReport for Unigene cluster: Hs.458346
SABiosciences Expression via Pathway-Focused PCR Array including XCL2: | Chemokines & Receptors in human mouse rat |
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for XCL2
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse / rat XCL2 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat XCL2 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat XCL2 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for XCL2 |
Orthologs
for XCL2 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of chordates.
Orthologs for XCL2 gene from 1/5 species (see all 5) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
chicken
(Gallus gallus) |
Aves |
LOC3959146 |
lymphotactin |
32(a) |
1 → many |
1(87329807-87334160) |
ENSEMBL Gene Tree for XCL2 (if available)
TreeFam Gene Tree for XCL2 (if available) |
Paralogs
for XCL2 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for XCL2 gene
- XCL12
14 SIMAP similar genes for XCL2 using alignment to 1 protein entry: XCL2_HUMAN:XCL1 CCL8 CCL13 CCL11 CCL3L1 CCL3L3
CCL26 CCL14 CCL24 CCL4L1 CCL4L2 LOC728835
CCL7 MCP-3
XCL2 for paralogs About GeneDecksing
|
Genomic Variants
for XCL2 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 1 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for XCL2 (168510003 - 168513235 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for XCL2: -- | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing XCL2 |
|
Disorders
/ Diseases
for XCL2 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
XCL2 for disorders About GeneDecksing
OMIM gene information: 604828
OMIM disorders: --
3  diseases for XCL2: About MalaCardsosteoarthritis tuberculosis mycobacterium tuberculosis
Export disorders for XCL2 gene to outside databases
|
Publications
for XCL2 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for XCL2 gene, integrated from 9 sources (see all 11):
(articles sorted by number of sources associating them with XCL2) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (2006)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
- Signal peptide prediction based on analysis of experimentally verified cleavage sites. (PubMed id 15340161)1, 2 Zhang Z. and Henzel W.J. (2004)
- Structure and expression of two highly related genes encoding SCM- 1/human lymphotactin. (PubMed id 8849694)1, 2 Yoshida T....Yoshie O. (1996)
- Molecular cloning of a novel C or gamma type chemokine, SCM-1. (PubMed id 7875320)1, 3 Yoshida T.... Yoshie O. (1995)
- Mycobacterium tuberculosis antigen Wag31 induces expression of C-chemokine XCL2 in macrophages. (PubMed id 18618175)1 Cao W....Lu H. (2008)
- Association of the -2510A/G chemokine (C-C motif) ligand 2 polymorphism with knee osteoarthritis in a Korean population. (PubMed id 17763208)1 Park H.J....Hong S.J. (2007)
- Stable association between G alpha(q) and phospholipase C beta 1 in living cells. (PubMed id 16754659)1 Dowal L....Scarlata S. (2006)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
- The sequence of the human genome. (PubMed id 11181995)1 Venter J.C.... Zhu X. (2001)
|
External Searches for XCL2 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing XCL2 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing XCL2 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing XCL2 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for XCL2 | Pharmacogenomics, SNPs, Pathways | | Wikipedia | http://en.wikipedia.org/wiki/XCL2 |
|
| | |
About This Section
| Patent Information for XCL2 gene:
Search GeneIP for patents involving XCL2
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for XCL2 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
| | |  | Browse OriGene Antibodies | | OriGene shRNA RFP for XCL2 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for XCL2 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for XCL2 | | | OriGene Protein Over-expression Lysate for XCL2 | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for XCL2 | | OriGene 3'-UTR Clone for XCL2 | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for XCL2 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for XCL2 | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | Browse OriGene full length recombinant human proteins expressed in human HEK293 cells | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling | | | OriGene Custom Antibody Services for XCL2 | | OriGene Custom Protein Services for XCL2 | | | OriGene Custom Immunoassay Development | | |
| |
 |
 |
| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat XCL2 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing XCL2 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat XCL2 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat XCL2 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat XCL2 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat XCL2 |
| |
 |  |  |  | |
| | | | Search Tocris compounds for XCL2 |
| |  |  |  |  | | | | |
 |
 |
 |
 | | | XCL2 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for XCL2 |
|  |  |  | | | | Search ThermoFisher Antibodies for XCL2 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat XCL2 |
|
|
|
|
