Ccl21 (C-C motif chemokine ligand 21)

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Gene: Ccl21 (C-C motif chemokine ligand 21) Chinchilla lanigera

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Symbol:

Ccl21

Name:

C-C motif chemokine ligand 21

RGD ID:

8723570

Description:

ENCODES a protein that exhibits CCR7 chemokine receptor binding (ortholog); chemokine activity (ortholog); chemokine receptor binding (ortholog); INVOLVED IN antimicrobial humoral immune response mediated by antimicrobial peptide (ortholog); cell chemotaxis (ortholog); cell maturation (ortholog); ASSOCIATED WITH acromesomelic dysplasia, Maroteaux type (ortholog); anauxetic dysplasia (ortholog); autosomal recessive distal hereditary motor neuronopathy 2 (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

C-C motif chemokine 21; chemokine (C-C motif) ligand 21

RGD Orthologs

Alliance Orthologs

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_004955472	1,427,710 - 1,429,102 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955472	1,427,660 - 1,428,771 (+)	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

acromesomelic dysplasia, Maroteaux type (ISO)

anauxetic dysplasia (ISO)

autosomal recessive distal hereditary motor neuronopathy 2 (ISO)

Cytomegalovirus Infections (ISO)

distal arthrogryposis type 1A (ISO)

frontotemporal dementia and/or amyotrophic lateral sclerosis 6 (ISO)

galactosemia (ISO)

hyperphosphatasia with impaired intellectual development syndrome 2 (ISO)

paraplegia (ISO)

primary ciliary dyskinesia (ISO)

pulmonary fibrosis (ISO)

rheumatoid arthritis (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

antimicrobial humoral immune response mediated by antimicrobial peptide (ISO)

cell chemotaxis (ISO)

cell maturation (ISO)

cellular response to chemokine (ISO)

chemokine (C-C motif) ligand 21 signaling pathway (ISO)

dendritic cell chemotaxis (ISO)

dendritic cell dendrite assembly (ISO)

establishment of T cell polarity (ISO)

G protein-coupled receptor signaling pathway (ISO)

immunological synapse formation (ISO)

induction of positive chemotaxis (ISO)

lymph node development (ISO)

mesangial cell-matrix adhesion (ISO)

negative regulation of dendritic cell apoptotic process (ISO)

negative regulation of dendritic cell dendrite assembly (ISO)

negative regulation of leukocyte tethering or rolling (ISO)

positive regulation of actin filament polymerization (ISO)

positive regulation of canonical NF-kappaB signal transduction (ISO)

positive regulation of cell adhesion mediated by integrin (ISO)

positive regulation of cell motility (ISO)

positive regulation of cell-matrix adhesion (ISO)

positive regulation of chemotaxis (ISO)

positive regulation of dendritic cell antigen processing and presentation (ISO)

positive regulation of ERK1 and ERK2 cascade (ISO)

positive regulation of filopodium assembly (ISO)

positive regulation of glycoprotein biosynthetic process (ISO)

positive regulation of JNK cascade (ISO)

positive regulation of myeloid dendritic cell chemotaxis (ISO)

positive regulation of neutrophil chemotaxis (ISO)

positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction (ISO)

positive regulation of pseudopodium assembly (ISO)

positive regulation of receptor-mediated endocytosis (ISO)

positive regulation of T cell chemotaxis (ISO)

positive regulation of T cell migration (ISO)

release of sequestered calcium ion into cytosol (ISO)

response to prostaglandin E (ISO)

ruffle organization (ISO)

T cell costimulation (ISO)

Molecular Function

CCR7 chemokine receptor binding (ISO)

chemokine activity (ISO)

chemokine receptor binding (ISO)

protein 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:22301074	PMID:30032202

Genomics

Comparative Map Data

Ccl21
(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_004955472	1,427,710 - 1,429,102 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955472	1,427,660 - 1,428,771 (+)	NCBI	ChiLan1.0	ChiLan1.0

CCL21
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	9	34,709,005 - 34,710,136 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	9	34,709,005 - 34,710,136 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	9	34,709,002 - 34,710,133 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	9	34,699,002 - 34,700,147 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	9	34,699,001 - 34,700,147	NCBI
Celera	9	34,640,475 - 34,641,620 (-)	NCBI		Celera
Cytogenetic Map	9	p13.3	NCBI
HuRef	9	34,663,256 - 34,664,418 (-)	NCBI		HuRef
CHM1_1	9	34,708,790 - 34,709,952 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	9	34,728,031 - 34,729,162 (-)	NCBI		T2T-CHM13v2.0

Ccl21a
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	42,772,860 - 42,773,991 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	4	42,772,860 - 42,773,993 (-)	Ensembl		GRCm39 Ensembl
GRCm38	4	42,772,860 - 42,773,991 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	42,772,860 - 42,773,993 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	4	42,786,392 - 42,787,523 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	4	42,794,620 - 42,795,751 (-)	NCBI		MGSCv36	mm8
Cytogenetic Map	4	A5	NCBI
cM Map	4	22.43	NCBI

Ccl21
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	61,776,411 - 61,777,515 (-)	NCBI		GRCr8
mRatBN7.2	5	56,980,557 - 56,981,661 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	56,980,558 - 56,981,686 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	58,954,871 - 58,955,975 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	60,773,700 - 60,774,804 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	60,759,810 - 60,760,914 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	58,197,678 - 58,198,782 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	58,197,680 - 58,198,782 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	62,722,614 - 62,723,718 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	59,238,897 - 59,240,001 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	5	59,239,077 - 59,240,180 (-)	NCBI
Celera	5	55,572,689 - 55,573,793 (-)	NCBI		Celera
Cytogenetic Map	5	q22	NCBI

CCL21
(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	11	89,886,250 - 89,895,097 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	9	89,892,190 - 89,901,037 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	9	34,545,248 - 34,546,801 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	9	35,353,768 - 35,354,924 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	9	35,353,768 - 35,354,924 (-)	Ensembl	panpan1.1		panPan2

CCL21
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	11	51,375,107 - 51,375,790 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	11	50,003,106 - 50,003,792 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	11	52,316,124 - 52,316,815 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	11	52,315,730 - 52,336,844 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	11	50,978,674 - 50,979,359 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	11	50,846,574 - 50,847,257 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	11	51,611,593 - 51,612,281 (-)	NCBI		UU_Cfam_GSD_1.0

Ccl21
(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_024404947	166,240,383 - 166,241,531 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936524	2,788,341 - 2,789,016 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936524	2,787,963 - 2,789,116 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CCL21
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	10	32,093,763 - 32,096,224 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	10	32,093,783 - 32,094,482 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	10	36,233,288 - 36,233,987 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CCL21
(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	12	45,787,118 - 45,788,506 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	12	45,787,356 - 45,908,711 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666038	43,020,959 - 43,022,109 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Ccl21
(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_004624736	39,121,466 - 39,122,962 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624736	39,121,575 - 39,122,708 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005401042	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01053390	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBCE01007174	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSCLAT00000002458 ⟹ ENSCLAP00000002407

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955472	1,427,710 - 1,429,102 (+)	Ensembl

RefSeq Acc Id:

XM_005401042 ⟹ XP_005401099

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955472	1,427,660 - 1,428,771 (+)	NCBI

Sequence:

show sequence

CAGCCGGCCTGGCCCACACACAGACCCCCACCTGTGACCGTCCATTTCAGCACAGCCCGGCCTC
AGCCACCGCCCCAACCCCAACCCCAGCCTCAGCCACACCCATGGCTCAGACGCTGGCTCTGAGG
CTCCTCGTCCTGGTGCTGGCCCTCTGCATCGCCCAGATACAAGGCAGCGACGGCGGTGCCCAGG
ACTGCTGCCTCAAGTACAGCCAGAGGAAGATTCCCCACAAGGTTATCCGCGGCTACCGGAAGCA
AGAGCCCAGCTTAGGCTGCCCCATCCCAGCTGTCCTGTTCCTGCCCAGGAAGCGCTCTCAGCCA
GAGCTATGTGCAGACCCCAAGGAGGCCTGGGTGCAGCAGCTGATGAAGCGTCTGGACAGCCCGC
CAGCCCAGGGCTGTAGGAAGGACAGAGGGAACCCCAAGTCTGGAAGGAAGGGAAAGGGCTCCAA
GGGCTGCAAGAAGACTGAGAAAGCACCACCAGGGCCGTAGCCCACTGACGGCCCGCAGCCCGGC
CTCCCCAGAGCTCGGCGCCCAGCTCAAGGGGCGAGAAGGTCAGAAGACAGGAAGCAGTCGGGCC
CAAGAAGCCACCCCATGCTGGCCTTGTCACACCCCTCTCCTGCTGCCACCTCCCTCCTGCACTC
CCTTCCCTCCCTTGCATGGCTGAGCTGCCCACACAGAGCCAGGCCCAGAGAGGCAGAGGAAAGA
GAGTCCCCCGGGGCGCGGGAGAGGAGACAGCGGGACTGTCCCCTCTGGTGGGTCACCCAGGGCC
CTAGACCTGATGCTGTTCCCCACTGCAGCCTCTCTTCCGTATAAATGTGAGCTGTATCTAGCCG
AATAAAGAGCTGTTCCAGACTTCTACCCAAA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005401099	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000002407
	ENSCLAP00000002407.1

RefSeq Acc Id:	XP_005401099 ⟸ XM_005401042
- UniProtKB:	A0A8C2UKX4 (UniProtKB/TrEMBL)
- Sequence:	show sequence MAQTLALRLLVLVLALCIAQIQGSDGGAQDCCLKYSQRKIPHKVIRGYRKQEPSLGCPIPAVLF LPRKRSQPELCADPKEAWVQQLMKRLDSPPAQGCRKDRGNPKSGRKGKGSKGCKKTEKAPPGP hide sequence

Ensembl Acc Id:

ENSCLAP00000002407 ⟸ ENSCLAT00000002458

Protein Domains

Chemokine interleukin-8-like

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000001747	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000002458	ENTREZGENE
	ENSCLAT00000002458.1	UniProtKB/TrEMBL
Gene3D-CATH	2.40.50.40	UniProtKB/TrEMBL
InterPro	Chemokine_b/g/d	UniProtKB/TrEMBL
	Chemokine_IL8-like_dom	UniProtKB/TrEMBL
	Interleukin_8-like_sf	UniProtKB/TrEMBL
NCBI Gene	Ccl21	ENTREZGENE
PANTHER	PTHR12015	UniProtKB/TrEMBL
	PTHR12015:SF72	UniProtKB/TrEMBL
Pfam	IL8	UniProtKB/TrEMBL
SMART	SCY	UniProtKB/TrEMBL
Superfamily-SCOP	SSF54117	UniProtKB/TrEMBL
UniProt	A0A8C2UKX4	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-08-03	Ccl21	C-C motif chemokine ligand 21		chemokine (C-C motif) ligand 21	Symbol and/or name change	5135510	APPROVED

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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