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Aliases & Descriptions for CCL21
(According to
1 HGNC ,
2 Entrez Gene ,
3 UniProtKB/Swiss-Prot ,
4 UniProtKB/TrEMBL , 5 OMIM , 6 GeneLoc
, and/or 7 Ensembl ,
8 miRBase )About This Section
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Aliases 6Ckine 1 , 2 , 3 CKb9 1 , 2 ECL 1 , 2 MGC34555 2 OTTHUMP00000000526 2 OTTHUMP00000000527 2 OTTHUMP00000021304 2 SCYA21 2 , 3 , 5 SLC 1 , 2 , 3 , 5 TCA4 1 , 2 exodus-2 1 , 2
Descriptions Beta chemokine exodus-2 2 , 3 Efficient Chemoattractant for Lymphocytes 2 Secondary lymphoid-tissue chemokine 3 Small-inducible cytokine A21 3 chemokine (C-C motif) ligand 21 2 secondary lymphoid tissue chemokine 2 small inducible cytokine A21 2 small inducible cytokine subfamily A (Cys-Cys), member 21 1 , 2
Search outside databases for aliases for CCL21 genePrevious GC identifers: GC09M035021 GC09M034878
Summaries for CCL21 (According to Entrez Gene ,
Wikipedia's
Gene Wiki ,
UniProtKB/Swiss-Prot ,
and/or
UniProtKB/TrEMBL )
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EntrezGene summary for CCL21 : This gene is one of several CC cytokine genes clustered on the p-arm of chromosome 9. Cytokines area family of secreted proteins involved in immunoregulatory and inflammatory processes. The CCcytokines are proteins characterized by two adjacent cysteines. Similar to other chemokines theprotein encoded by this gene inhibits hemopoiesis and stimulates chemotaxis. This protein ischemotactic in vitro for thymocytes and activated T cells, but not for B cells, macrophages, orneutrophils. The cytokine encoded by this gene may also play a role in mediating homing oflymphocytes to secondary lymphoid organs. It is a high affinity functional ligand for chemokinereceptor 7 (CCR7) that is expressed on T and B lymphocytes and a known receptor for another memberof the cytokine family (small inducible cytokine A19). [provided by RefSeq] UniProtKB/Swiss-Prot: CCL21_HUMAN, O00585 Function : Inhibits hemopoiesis and stimulates chemotaxis. Chemotactic in vitro for thymocytes andactivated T-cells, but not for B-cells, macrophages, or neutrophils. Shows preferential activitytowards naive T-cells. May play a role in mediating homing of lymphocytes to secondary lymphoidorgans
Gene Wiki entry for CCL21
Genomic Location for CCL21
(According to
GeneLoc and/or
HGNC , and/or
Entrez Gene (NCBI build 36) ,
and/or miRBase ,
Genomic Views according to
UCSC and
Ensembl ,
Transcription factor binding sites according to
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Genomic View : UCSC Golden Path with GeneCards custom track Transcription factor binding sites upstream to the CCL21 gene Entrez Gene cytogenetic band: 9p13 Ensembl cytogenetic band: 9p13.3 HGNC cytogenetic band: 9p13 CCL21 Gene in genomic location: bands according to Ensembl, locations according to
(and/or Entrez Gene and/or Ensembl if different) GeneLoc gene densities for chromosome 9 GeneLoc Exon Structure
GeneLoc location for GC09M034699:
(about GC identifiers )
Start:
34,699,002 bp from pter
End:
34,700,147 bp from pter
Size:
1,146 bases
Orientation:
minus strand
RefSeq DNA sequence: NC_000009.10 NT_008413.17 Proteins for CCL21
(According to
1 UniProtKB ,
and/or Ensembl ,
Phosphorylation sites according to 2 Phosphosite ,
RefSeq according to NCBI ,
PDB rendering according to OCA and/or Proteopedia ,
Recombinant Proteins
from Invitrogen ,
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
Enzo Life Sciences ,
Abnova ,
OriGene and/or,
Abcam ,
Biochemical Assays by
Invitrogen ,
Millipore ,
R&D Systems ,
Cell Signaling Technology , and/or
Enzo Life Sciences ,
Ontologies according to Gene
Ontology Consortium 01 Apr 2009 and
Entrez Gene ,
Antibodies by Invitrogen ,
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
Cell Signaling Technology ,
Abcam ,
Abnova , and/or
Novus Biologicals )
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UniProtKB/Swiss-Prot: CCL21_HUMAN, O00585 (See
protein sequence )Recommended Name: C-C motif chemokine 21 precursor Size : 134 amino acids; 14646 Da
Subunit : Binds to CCR7
Subcellular location : Secreted
Post-translational modifications:
View phosphorylation sites using PhosphoSite 2
REFSEQ proteins: NP_002980.1 ENSEMBL proteins: ENSP00000368069 ENSP00000259607 Human Recombinant Proteins Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 2 Gene Ontology (GO) cellular component terms (links to tree view) :
GO ID Qualified GO term Evidence PubMed IDs GO:0005576 extracellular region
IEA -- GO:0005615 extracellular space
IEA --
About this table Antibodies for CCL21: Assays for CCL21:
Protein
Domains/ Families for CCL21(According to InterPro , ProtoNet ,
UniProtKB , and/or BLOCKS ,
Sets of similar genes according to GeneDecks )
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Graphical View of Domain Structure for InterPro Entry O00585 ProtoNet protein and cluster: O00585
1 Blocks protein family : IPB000827 Small chemokine UniProtKB/Swiss-Prot: CCL21_HUMAN, O00585 Similarity : Belongs to the intercrine beta (chemokine CC) family
Gene Function for CCL21
(According to MGI Jun 06 2009, UniProtKB ,
IUBMB ,and/or Genatlas ,
shRNA from
OriGene ,
Sigma-Aldrich , RNAi from
Sigma-Aldrich ,
RNAi Products ,
Clones , and
Q-PCR Products
from Invitrogen ,
Millipore ,
OriGene , and/or
Abnova ,
siRNAs from
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SYBR primers from OriGene ,
Cell-based Assays from Millipore ,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene .)
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              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_002989 Applied Biosystems Silencer ® siRNAs for CCL21 Sigma-Aldrich siRNA and siRNA Panels for CCL21 Sigma-Aldrich shRNA for CCL21 Explore Sigma-Aldrich super-pooled esiRNAs               OriGene GFP tagged cDNA clone in CMV expression vector: NM_002989                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_002989                                  untagged cDNA clone in CMV expression vector: NM_002989  Primers: Browse
Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers               OriGene genome-wide validated SYBR primer pairs: NM_002989 UniProtKB/Swiss-Prot: CCL21_HUMAN, O00585 Function : Inhibits hemopoiesis and stimulates chemotaxis. Chemotactic in vitro for thymocytes andactivated T-cells, but not for B-cells, macrophages, or neutrophils. Shows preferential activitytowards naive T-cells. May play a role in mediating homing of lymphocytes to secondary lymphoidorgans
1 Gene Ontology (GO) molecular function term (links to tree view) :
About this table
Pathways & Interactions for CCL21
(Pathways according to Invitrogen
(maps by GeneGo ),
Millipore ,
Cell Signaling Technology ,
Sigma-Aldrich ,
KEGG
and/or UniProtKB ,
Sets of similar genes according to GeneDecks ,
Proteins Network according to
SABiosciences ,
Interactions according to 1 UniProtKB ,
2 MINT , and/or
3 STRING ,
with links to IntAct and
Ensembl ,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene .)
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1 Sigma-Aldrich "Your Favorite Gene" Pathway for CCL21 (Your Favorite Gene powered by Ingenuity) Gene Network CentralTM Interacting Genes and Proteins Network for CCL21 5/52 Interacting proteins for CCL21 (O00585 2 ENSP00000259607 3 ) via UniProtKB, MINT, and/or STRING (see all 52
)About this table 5 Gene Ontology (GO) biological process terms (links to tree view) :
About this table
Drugs & Compounds for CCL21 (Chemical Compounds according to UniProtKB , Enzo Life Sciences ,
Sigma-Aldrich , Tocris Bioscience , and/or
Novoseek and Drugs according to
Enzo Life Sciences and/or
PharmGKB )
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Browse Tocris compounds for CCL21 8 Novoseek chemical compound relationships for CCL21 gene
Compound
Score
Articles
PubMed IDs for Articles with Shared Sentences (# sentences)
mip-3beta
84.50
2
12437666 (2)
teck
76.87
5
10706668 (3), 9886241 (1), 10967023 (1)
larc
72.91
6
9365118 (2), 10027395 (2), 10967023 (1)
tarc
60.16
5
9365118 (2), 15890946 (2)
ccl3
59.72
4
15818740 (1), 12651610 (1), 16106219 (1)
rantes
50.57
7
15818740 (1), 12847218 (1), 15233729 (1), 12667214 (1) (see all 5 )
ccl4
25.79
4
12651610 (1), 16106219 (1), 18250572 (1)
calcium
0.00
6
9507024 (3), 10339465 (2), 15956285 (1)
About this table
Transcripts for CCL21(GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 219 Homo sapiens; Jun 2 2009) or GenBank , RefSeq according to Entrez Gene ,
DOTS (version 10), and/or
AceView ,
non coding RNAs according to
RNAdb ,
ESTs according to GeneTide ,
exon structure from GeneLoc ,
alternative splicing isoforms according to ASD and/or
ECgene ,
RNAi Products from Invitrogen ,
Millipore , and/or
Abnova ,
siRNAs from Applied Biosystems ,
Sigma-Aldrich ,
shRNA from
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OriGene ,
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              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_002989 Sigma-Aldrich siRNA and siRNA Panels for CCL21 Sigma-Aldrich shRNA for CCL21 Explore Sigma-Aldrich super-pooled esiRNAs
Applied Biosystems Silencer ® siRNAs: NM_002989
REFSEQ mRNAs for CCL21 gene: NM_002989.2
Applied Biosystems TaqMan ® Gene Expression Assays: NM_002989
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_002989                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_002989                                  untagged cDNA clone in CMV expression vector: NM_002989  
Additional cDNA sequence: AB002409.1 AF001979.1 AK311901.1 AY358887.1 BC027918.1 CR450326.1 CR615435.1 U88320.1
2 DOTS entries : DT.414858 DT.100748260
24/118 AceView cDNA sequences (see all 118
):AA331228 AY358887 AI571892 AI253634 BI834167 AI143228 CR615435 BI838571 AA360283 AI707832 CR450326 AI253757 AA360212 AI718192 AI707973 BI837774 AA234005 BM704701 AI719947 AA027315 CF530057 CB164244 AI718256 BC027918
highest scoring ESTs for CCL21 :AB002409 AA027314 AA149456 AA297977 AA298031 AA302819 AF001979 AL553486 AL553510 AY358887
Unigene Cluster for CCL21: Chemokine (C-C motif) ligand 21 Hs.57907 [show with all ESTs ] Unigene Representative Sequence: BI838628 GeneLoc Exon Structure 2 Alternative Splicing Database (ASD) splice patterns (SP) for CCL21 ExUns: 1a · 1b ^ 2 ^ 3 ^ 4a · 4b SP1 :             SP2 :            
About this scheme ECgene alternative splicing isoforms for CCL21 2 Ensembl transcripts including schematic representations : ENST00000378792
ENST00000259607
Expression for CCL21
(Experimental results according to
1 GeneNote
and GNF BioGPS ,
probe sets-to-genes annotations according to
2 GeneAnnot ,
3 GeneTide ,
Sets of similar genes according to GeneDecks ,
Electronic Northern calculations according to data from
UniGene (Build 219 Homo sapiens),
SAGE tags according to
CGAP ,
plus additional links to
SOURCE , and/or
GNF
BioGPS , and/or
EXPOLDB , and/or
UniProtKB ,
Expression Assays from
Applied Biosystems
)
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CCL21 expression in normal and diseased human tissues Applied Biosystems TaqMan ® Gene Expression Assays for CCL21 1 / 2 / 3
3 probe-sets matching CCL21 gene Data from
(Publications) and GNF BioGPS About these images About these images CGAP SAGE TAG: AGAGGAGGCASOURCE GeneReport for Unigene cluster: Hs.57907 Expression variation in blood from EXPOLDB for CCL21
UniProtKB/Swiss-Prot: CCL21_HUMAN, O00585 Tissue specificity : Highly expressed in high endothelial venules of lymph nodes, spleen andappendix. Intermediate levels found in small intestine, thyroid gland and trachea. Low levelexpression in thymus, bone marrow, liver, and pancreas. Also found in tonsil, fetal heart andfetal spleen
Orthologs for CCL21
(Orthologs according to
1,2 HomoloGene (2 older version, for species not in 1 newer version),
3 euGenes ,
4 SGD
and/or
5 MGI Jun 06 2009,
with possible further links to
Flybase
and/or
WormBase ,
Gene Trees according to Ensembl )
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Orthologs for CCL21 gene from 4 species
About this table Species with no ortholog for CCL21 ENSEMBL Gene Tree for CCL21 Paralogs for CCL21 (Paralogs according to 1 HomoloGene and 2 Ensembl , Pseudogenes according to 3 Pseudogene.org )About This Section
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Paralogs for CCL21 gene CCL19 2
SNPs/Variants for CCL21 (According to the
1 NCBI SNP Database ,
2 Ensembl ,
3 PupaSUITE , and
UniProtKB ,
Linkage Disequilibrium by HapMap ,
Genotyping Reagents from
Applied Biosystems )
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HapMap Linkage Disequilibrium images for CCL21 (up to first 250kb)
Disorders & Mutations for CCL21
(in which this Gene is Involved, According to
OMIM, UniProtKB ,
Novoseek , PharmGKB ,
Genatlas , GeneTests ,
Blood group antigen gene mutations by BGMUT ,
HGMD, GAD ,
HuGE Navigator ,
BCGD ,
and/or TGDB .)
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OMIM: 602737 10/17 Novoseek disease relationships for CCL21 gene (see all 17
)
Disease
Score
Articles
PubMed IDs for Articles with Shared Sentences (# sentences)
sjogrens syndrome
27.01
1
18354239 (1)
melanoma b16
25.89
1
16112911 (1)
autoimmune diseases
23.77
2
12393410 (1), 16887149 (1)
tumors
22.08
13
14613584 (2), 14726959 (1), 15059899 (1), 17016763 (1) (see all 12 )
inflammation
18.73
6
17982129 (1), 16118351 (1), 11943728 (1), 14517790 (1) (see all 5 )
atherosclerotic plaque
15.32
1
10027395 (1)
metastasis
14.68
2
17891505 (1)
necrosis
8.58
4
12186835 (1), 16106219 (1), 17223654 (1), 16618517 (1)
multiple sclerosis
7.05
2
12576236 (1)
cancer
6.73
3
14613584 (1), 16112911 (1), 15671487 (1)
About this table Human Genome Epidemiology Navigator: CCL21 (3 documents)
Medical News for CCL21 (Possibly Related Articles in
Doctor's Guide )
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--
Publications for CCL21 (in
PubMed .
Associations of this gene to articles via
1 Novoseek ,
2 HGNC ,
3 Entrez Gene ,
4 UniProtKB/Swiss-Prot ,
5 UniProtKB/TrEMBL ,
6 GAD , and/or
7 PharmGKB )
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10/161 PubMed articles for CCL21 gene (see all 161
): Molecular cloning of a novel human CC chemokine secondary lymphoid- tissue chemokine that is a potent chemoattractant for lymphocytes and mapped to chromosome 9p13. (PubMed id 9235955) 1, 2, 3, 4 Nagira M.... Yoshie O. (1997) Secondary lymphoid-tissue chemokine is a functional ligand for the CC chemokine receptor CCR7. (PubMed id 9507024) 1, 3, 4 Yoshida R.... Yoshie O. (1998) A chemokine expressed in lymphoid high endothelial venules promotes the adhesion and chemotaxis of naive T lymphocytes. (PubMed id 9419363) 1, 3, 4 Gunn M.D....Williams L.T. (1998) The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334) 3, 4 Gerhard D.S....Malek J. (2004) The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309) 3, 4 Clark H.F....Gray A. (2003) Isolation and characterization of Exodus-2, a novel C-C chemokine with a unique 37-amino acid carboxyl-terminal extension. (PubMed id 9300671) 3, 4 Hromas R.... Broxmeyer H.E. (1997) Identification and characterization of a novel beta chemokine containing six conserved cysteines. (PubMed id 9257816) 3, 4 Hedrick J.A. and Zlotnik A. (1997) CCL21 expression pattern of human secondary lymphoid organ stroma is conserved in inflammatory lesions with lymphoid neogenesis. (PubMed id 17982129) 1, 3 Manzo A....Pitzalis C. (2007) The chemokine CCL21 modulates lymphocyte recruitment and fibrosis in chronic hepatitis C. (PubMed id 14517790) 1, 3 Bonacchi A....Marra F. (2003) Cathepsin D specifically cleaves the chemokines macrophage inflammatory protein-1 alpha, macrophage inflammatory protein-1 beta, and SLC that are expressed in human breast cancer. (PubMed id 12651610) 1, 3 Wolf M....Mazzucchelli L. (2003)
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Genome Databases showing CCL21
(According to
Entrez Gene ,
HGNC ,
AceView ,
euGenes ,
Ensembl ,
miRBase ,
ECgene ,
and/or
H-InvDB )
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Other Databases showing CCL21
(According to HUGE )
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Specialized Databases showing CCL21 (According to ATLAS , HORDE , IMGT , MTDB, LEIDEN , UniProtKB/Swiss-Prot , and/or UniProtKB/TrEMBL ,Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot )About This Section
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-- Services for CCL21 (Reagents available from Applied Biosystems , Antibodies and assays by Cell
Signaling Technology , Abcam , Novus Biologicals ,Sigma-Aldrich , R&D Systems , Millipore , Abnova , and/or Invitrogen , Clones available from OriGene ,and/or Invitrogen , Drugs and/or compounds by Sigma-Aldrich , Enzo Life Sciences , and/or Tocris Bioscience )About This Section
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Products for CCL21:
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