CCL28 (C-C motif chemokine ligand 28) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: CCL28 (C-C motif chemokine ligand 28) Sus scrofa
Analyze
Symbol: CCL28
Name: C-C motif chemokine ligand 28
RGD ID: 14230237
Description: ENCODES a protein that exhibits chemokine activity (inferred); cytokine activity (inferred); INVOLVED IN antimicrobial humoral immune response mediated by antimicrobial peptide (ortholog); killing of cells of another organism (ortholog); positive regulation of cytosolic calcium ion concentration (ortholog); ASSOCIATED WITH asthma (ortholog); atopic dermatitis (ortholog); bronchial disease (ortholog); FOUND IN secretory granule (ortholog)
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: C-C motif chemokine 28; chemokine CCL28; MEC; mucosae-associated epithelial chemokine CCL28
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1627,985,167 - 28,010,858 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11627,990,024 - 28,010,859 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21629,377,476 - 29,399,143 (+)NCBISscrofa10.2Sscrofa10.2susScr3
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:17561257   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
CCL28
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1627,985,167 - 28,010,858 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11627,990,024 - 28,010,859 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21629,377,476 - 29,399,143 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CCL28
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38543,356,975 - 43,412,391 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl543,376,645 - 43,412,391 (-)EnsemblGRCh38hg38GRCh38
GRCh37543,376,747 - 43,412,493 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36543,417,357 - 43,448,245 (-)NCBINCBI36Build 36hg18NCBI36
Build 34543,412,504 - 43,448,229NCBI
Celera543,272,718 - 43,303,607 (-)NCBICelera
Cytogenetic Map5p12NCBI
HuRef543,332,397 - 43,363,621 (-)NCBIHuRef
CHM1_1543,382,924 - 43,413,832 (-)NCBICHM1_1
T2T-CHM13v2.0543,609,806 - 43,665,221 (-)NCBIT2T-CHM13v2.0
Ccl28
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3913120,085,355 - 120,115,895 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl13120,085,355 - 120,115,895 (+)EnsemblGRCm39 Ensembl
GRCm3813119,623,819 - 119,654,359 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl13119,623,819 - 119,654,359 (+)EnsemblGRCm38mm10GRCm38
Celera13124,002,981 - 124,040,196 (+)NCBICelera
Cytogenetic Map13D2.3NCBI
Ccl28
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8253,334,071 - 53,358,709 (+)NCBIGRCr8
mRatBN7.2251,601,354 - 51,625,999 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl251,601,331 - 51,625,997 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx258,720,298 - 58,745,016 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0256,779,014 - 56,803,736 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0251,713,145 - 51,737,860 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0252,379,341 - 52,403,979 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl252,379,341 - 52,404,246 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0270,743,251 - 70,767,888 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4251,688,294 - 51,712,931 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1251,616,526 - 51,641,162 (+)NCBI
Celera247,256,317 - 47,280,946 (+)NCBICelera
Cytogenetic Map2q15NCBI
Ccl28
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544618,902,636 - 18,925,561 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544618,902,465 - 18,925,178 (+)NCBIChiLan1.0ChiLan1.0
CCL28
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2466,938,933 - 66,952,819 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1565,092,559 - 65,106,433 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0566,977,643 - 66,998,420 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1572,012,579 - 72,046,074 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl572,012,579 - 72,046,031 (+)Ensemblpanpan1.1panPan2
CCL28
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1466,567,139 - 66,597,310 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl466,566,989 - 66,597,459 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha466,327,898 - 66,358,117 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0467,059,634 - 67,089,860 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl467,058,916 - 67,090,314 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1466,817,571 - 66,848,315 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0466,947,140 - 66,977,927 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0467,484,045 - 67,514,790 (+)NCBIUU_Cfam_GSD_1.0
Ccl28
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213209,873,838 - 209,888,593 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648018,810,406 - 18,824,894 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648018,819,012 - 18,824,981 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCL28
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1442,163,094 - 42,194,517 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607132,639,127 - 32,653,708 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ccl28
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475911,759,048 - 11,784,493 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475911,759,304 - 11,781,284 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in CCL28
748 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 renal system reproductive system respiratory system
High
Medium 4 1
Low 4 3 3 1 1
Below cutoff 1 1 3 1 1

Sequence


RefSeq Acc Id: ENSSSCT00000018375   ⟹   ENSSSCP00000017879
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1627,985,167 - 28,010,858 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000082040   ⟹   ENSSSCP00000065944
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1627,985,167 - 27,994,632 (-)Ensembl
RefSeq Acc Id: NM_001024695   ⟹   NP_001019866
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11627,990,024 - 28,010,859 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001019866 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAQ84096 (Get FASTA)   NCBI Sequence Viewer  
  AAX35549 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSSCP00000017879
  ENSSSCP00000017879.4
  ENSSSCP00000065944.1
  ENSSSCP00005022218.1
RefSeq Acc Id: NP_001019866   ⟸   NM_001024695
- Peptide Label: precursor
- UniProtKB: Q58NT0 (UniProtKB/TrEMBL),   F1SMG9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000065944   ⟸   ENSSSCT00000082040
RefSeq Acc Id: ENSSSCP00000017879   ⟸   ENSSSCT00000018375

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000016871 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005022938 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000018375 ENTREZGENE
  ENSSSCT00000018375.6 UniProtKB/TrEMBL
  ENSSSCT00000082040.1 UniProtKB/TrEMBL
  ENSSSCT00005036377.1 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.40 UniProtKB/TrEMBL
InterPro Chemokine_CC_CS UniProtKB/TrEMBL
  Chemokine_IL8-like_dom UniProtKB/TrEMBL
  Interleukin_8-like_sf UniProtKB/TrEMBL
KEGG Report ssc:554303 UniProtKB/TrEMBL
NCBI Gene CCL28 ENTREZGENE
PANTHER C-C MOTIF CHEMOKINE 27 FAMILY MEMBER UniProtKB/TrEMBL
  C-C MOTIF CHEMOKINE 28 UniProtKB/TrEMBL
Pfam IL8 UniProtKB/TrEMBL
PROSITE SMALL_CYTOKINES_CC UniProtKB/TrEMBL
Superfamily-SCOP SSF54117 UniProtKB/TrEMBL
UniProt A0A8D1YDH7_PIG UniProtKB/TrEMBL
  F1SMG9 ENTREZGENE, UniProtKB/TrEMBL
  Q4VWI1_PIG UniProtKB/TrEMBL
  Q58NT0 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A5G2QMQ9 UniProtKB/TrEMBL
VGNC ID VGNC:86342 ENTREZGENE