CCL1 (C-C motif chemokine ligand 1) - Rat Genome Database

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Gene: CCL1 (C-C motif chemokine ligand 1) Canis lupus familiaris
Analyze
Symbol: CCL1
Name: C-C motif chemokine ligand 1
RGD ID: 12167688
Description: ENCODES a protein that exhibits chemokine activity (inferred); cytokine activity (inferred); INVOLVED IN antimicrobial humoral immune response mediated by antimicrobial peptide (ortholog); cellular response to interleukin-17 (ortholog); chemotaxis (ortholog); ASSOCIATED WITH asthma (ortholog); chronic obstructive pulmonary disease (ortholog); endometriosis (ortholog); FOUND IN extracellular region (inferred); extracellular space (inferred)
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: C-C motif chemokine 1; CC chemokine ligand 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1938,931,895 - 38,936,969 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl938,933,514 - 38,961,187 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha938,157,124 - 38,159,766 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0939,745,091 - 39,750,147 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl939,732,229 - 39,775,778 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1938,528,124 - 38,530,764 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0938,813,946 - 38,816,584 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0938,902,407 - 38,905,062 (+)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
CCL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1938,931,895 - 38,936,969 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl938,933,514 - 38,961,187 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha938,157,124 - 38,159,766 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0939,745,091 - 39,750,147 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl939,732,229 - 39,775,778 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1938,528,124 - 38,530,764 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0938,813,946 - 38,816,584 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0938,902,407 - 38,905,062 (+)NCBIUU_Cfam_GSD_1.0
CCL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381734,360,328 - 34,363,233 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1734,360,328 - 34,363,233 (-)EnsemblGRCh38hg38GRCh38
GRCh371732,687,347 - 32,690,252 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361729,711,512 - 29,714,365 (-)NCBINCBI36Build 36hg18NCBI36
Build 341729,711,511 - 29,714,365NCBI
Celera1729,597,629 - 29,600,463 (-)NCBICelera
Cytogenetic Map17q12NCBI
HuRef1728,873,463 - 28,876,185 (-)NCBIHuRef
CHM1_11732,751,611 - 32,754,516 (-)NCBICHM1_1
T2T-CHM13v2.01735,307,311 - 35,310,197 (-)NCBIT2T-CHM13v2.0
Ccl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391182,067,492 - 82,070,638 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1182,067,483 - 82,196,516 (-)EnsemblGRCm39 Ensembl
GRCm381182,176,666 - 82,179,812 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1182,176,657 - 82,305,690 (-)EnsemblGRCm38mm10GRCm38
MGSCv371181,990,168 - 81,993,314 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361181,992,861 - 81,996,009 (-)NCBIMGSCv36mm8
Celera1191,796,179 - 91,799,095 (-)NCBICelera
Cytogenetic Map11CNCBI
cM Map1149.99NCBI
Ccl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81067,625,962 - 67,628,740 (-)NCBIGRCr8
mRatBN7.21067,128,331 - 67,131,109 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1067,128,331 - 67,131,159 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1071,749,335 - 71,752,067 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01071,254,682 - 71,257,414 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01066,715,803 - 66,718,531 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01069,534,976 - 69,537,836 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1069,534,933 - 69,537,882 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01069,169,282 - 69,172,142 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41070,380,498 - 70,383,276 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1066,075,147 - 66,077,925 (-)NCBICelera
Cytogenetic Map10q26NCBI
Ccl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554819,085,943 - 9,089,147 (-)NCBIChiLan1.0ChiLan1.0
CCL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21930,104,080 - 30,110,267 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11731,985,443 - 31,990,789 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01722,425,022 - 22,430,243 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11722,719,425 - 22,722,341 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1722,719,425 - 22,722,341 (+)Ensemblpanpan1.1panPan2
Ccl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560237,903,688 - 37,906,286 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936538781,687 - 784,199 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936538781,687 - 784,199 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1240,728,014 - 40,731,411 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11240,728,014 - 40,731,411 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21242,467,618 - 42,471,014 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CCL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11627,868,925 - 27,890,143 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660752,146,830 - 2,150,119 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ccl1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248752,224,784 - 2,229,465 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in CCL1
84 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 circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 3 4 3
Low 2 5 3 5 3 2 1 1 5 4
Below cutoff 1 1 1 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000029143   ⟹   ENSCAFP00000027101
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl938,934,058 - 38,951,180 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000044199   ⟹   ENSCAFP00000038001
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl938,934,058 - 38,961,187 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000084507   ⟹   ENSCAFP00000048804
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl938,933,514 - 38,937,046 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845019943   ⟹   ENSCAFP00845015621
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl939,732,229 - 39,764,389 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845020003   ⟹   ENSCAFP00845015670
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl939,747,254 - 39,775,778 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845020037   ⟹   ENSCAFP00845015701
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl939,747,254 - 39,750,187 (+)Ensembl
RefSeq Acc Id: NM_001005252   ⟹   NP_001005252
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1938,934,058 - 38,936,698 (+)NCBI
Dog10K_Boxer_Tasha938,157,124 - 38,159,766 (+)NCBI
ROS_Cfam_1.0939,747,254 - 39,749,908 (+)NCBI
UMICH_Zoey_3.1938,528,124 - 38,530,764 (+)NCBI
UNSW_CanFamBas_1.0938,813,946 - 38,816,584 (+)NCBI
UU_Cfam_GSD_1.0938,902,407 - 38,905,062 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038674985   ⟹   XP_038530913
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0939,745,091 - 39,750,147 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001005252   ⟸   NM_001005252
- Peptide Label: precursor
- UniProtKB: Q68AY8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000048804   ⟸   ENSCAFT00000084507
RefSeq Acc Id: ENSCAFP00000038001   ⟸   ENSCAFT00000044199
RefSeq Acc Id: ENSCAFP00000027101   ⟸   ENSCAFT00000029143
RefSeq Acc Id: XP_038530913   ⟸   XM_038674985
- Peptide Label: isoform X1
- UniProtKB: A0A8C0KNY7 (UniProtKB/TrEMBL),   A0A8C0SAA6 (UniProtKB/TrEMBL),   A0A8I3NIA9 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845015670   ⟸   ENSCAFT00845020003
RefSeq Acc Id: ENSCAFP00845015701   ⟸   ENSCAFT00845020037
RefSeq Acc Id: ENSCAFP00845015621   ⟸   ENSCAFT00845019943
Protein Domains
Chemokine interleukin-8-like

Promoters
RGD ID:13684650
Promoter ID:EPDNEW_C2720
Type:single initiation site
Name:CCL1_1
Description:C-C motif chemokine ligand 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1938,933,988 - 38,934,048EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000018347 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030016965 UniProtKB/TrEMBL
  ENSCAFG00040011322 UniProtKB/TrEMBL
  ENSCAFG00845011240 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000029143.4 UniProtKB/TrEMBL
  ENSCAFT00000044199.4 UniProtKB/TrEMBL
  ENSCAFT00000084507.2 UniProtKB/TrEMBL
  ENSCAFT00030031328.1 UniProtKB/TrEMBL
  ENSCAFT00040020910.1 UniProtKB/TrEMBL
  ENSCAFT00040020968.1 UniProtKB/TrEMBL
  ENSCAFT00845019943.1 UniProtKB/TrEMBL
  ENSCAFT00845020003.1 UniProtKB/TrEMBL
  ENSCAFT00845020037 ENTREZGENE
  ENSCAFT00845020037.1 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.40 UniProtKB/TrEMBL
InterPro Chemokine_b/g/d UniProtKB/TrEMBL
  Chemokine_CC_CS UniProtKB/TrEMBL
  Chemokine_IL8-like_dom UniProtKB/TrEMBL
  Interleukin_8-like_sf UniProtKB/TrEMBL
KEGG Report cfa:448788 UniProtKB/TrEMBL
NCBI Gene CCL1 ENTREZGENE
PANTHER C-C MOTIF CHEMOKINE 1 UniProtKB/TrEMBL
  PTHR12015 UniProtKB/TrEMBL
Pfam IL8 UniProtKB/TrEMBL
PROSITE SMALL_CYTOKINES_CC UniProtKB/TrEMBL
SMART SCY UniProtKB/TrEMBL
Superfamily-SCOP SSF54117 UniProtKB/TrEMBL
UniProt A0A8C0KNY7 ENTREZGENE
  A0A8C0NU85_CANLF UniProtKB/TrEMBL
  A0A8C0SAA6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0SAD0_CANLF UniProtKB/TrEMBL
  A0A8I3NHX2_CANLF UniProtKB/TrEMBL
  A0A8I3NIA9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3RYH5_CANLF UniProtKB/TrEMBL
  A0A8P0SMG7_CANLF UniProtKB/TrEMBL
  Q68AY8 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A8P0NPT1 UniProtKB/TrEMBL
VGNC ID VGNC:38880 ENTREZGENE