Ccl27 (C-C motif chemokine ligand 27) - Rat Genome Database

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Gene: Ccl27 (C-C motif chemokine ligand 27) Rattus norvegicus
Analyze
Symbol: Ccl27
Name: C-C motif chemokine ligand 27
RGD ID: 1304660
Description: Predicted to enable CCR3 chemokine receptor binding activity and chemokine activity. Predicted to be involved in several processes, including killing of cells of another organism; positive regulation of T cell chemotaxis; and positive regulation of actin cytoskeleton reorganization. Predicted to act upstream of or within positive regulation of mononuclear cell migration and signal transduction. Predicted to be located in nucleus. Predicted to be active in extracellular region. Orthologous to human CCL27 (C-C motif chemokine ligand 27); PARTICIPATES IN chemokine mediated signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: C-C motif chemokine 27; chemokine (C-C motif) ligand 27; LOC362505
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2556,941,402 - 56,948,511 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl556,941,402 - 56,948,506 (-)Ensembl
Rnor_6.0558,159,066 - 58,166,182 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl558,159,066 - 58,163,584 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0562,683,432 - 62,690,538 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4559,199,779 - 59,204,297 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1559,199,964 - 59,204,536 (-)NCBI
Celera555,533,557 - 55,538,075 (-)NCBICelera
Cytogenetic Map5q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. TARC and RANTES, but not CTACK, are induced in two models of allergic contact dermatitis. Effects of cilomilast and diflorasone diacetate on T-cell-attracting chemokines. Baumer W, etal., Br J Dermatol. 2004 Oct;151(4):823-30.
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Increased serum cutaneous T cell-attracting chemokine (CCL27) levels in patients with atopic dermatitis and psoriasis vulgaris. Kakinuma T, etal., J Allergy Clin Immunol. 2003 Mar;111(3):592-7.
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
7. GOA pipeline RGD automated data pipeline
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Comprehensive gene review and curation RGD comprehensive gene curation
11. Plasma IP-10 and MCP-3 levels are highly associated with disease severity and predict the progression of COVID-19. Yang Y, etal., J Allergy Clin Immunol. 2020 Apr 29. pii: S0091-6749(20)30576-5. doi: 10.1016/j.jaci.2020.04.027.
Additional References at PubMed
PMID:10559234   PMID:10588729   PMID:10725696   PMID:12133963   PMID:12477932   PMID:12538707   PMID:19109182  


Genomics

Comparative Map Data
Ccl27
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2556,941,402 - 56,948,511 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl556,941,402 - 56,948,506 (-)Ensembl
Rnor_6.0558,159,066 - 58,166,182 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl558,159,066 - 58,163,584 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0562,683,432 - 62,690,538 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4559,199,779 - 59,204,297 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1559,199,964 - 59,204,536 (-)NCBI
Celera555,533,557 - 55,538,075 (-)NCBICelera
Cytogenetic Map5q22NCBI
CCL27
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38934,661,890 - 34,662,657 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl934,661,880 - 34,664,048 (-)EnsemblGRCh38hg38GRCh38
GRCh37934,661,887 - 34,662,654 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36934,651,893 - 34,652,689 (-)NCBINCBI36hg18NCBI36
Build 34934,651,892 - 34,652,689NCBI
Celera934,593,364 - 34,594,160 (-)NCBI
Cytogenetic Map9p13.3NCBI
HuRef934,616,175 - 34,616,971 (-)NCBIHuRef
CHM1_1934,661,676 - 34,662,472 (-)NCBICHM1_1
T2T-CHM13v2.0934,680,420 - 34,681,187 (-)NCBI
Ccl27a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39441,769,467 - 41,774,251 (-)NCBIGRCm39mm39
GRCm39 Ensembl441,769,467 - 41,774,247 (-)Ensembl
GRCm38441,769,467 - 41,774,225 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl441,769,467 - 41,774,247 (-)EnsemblGRCm38mm10GRCm38
MGSCv37441,716,340 - 41,721,049 (-)NCBIGRCm37mm9NCBIm37
MGSCv36441,957,989 - 41,958,723 (-)NCBImm8
Celera441,430,271 - 41,436,891 (-)NCBICelera
Cytogenetic Map4A5NCBI
cM Map422.08NCBI
Ccl27
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554721,471,551 - 1,474,777 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554721,470,407 - 1,474,800 (+)NCBIChiLan1.0ChiLan1.0
LOC100977215
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1935,307,155 - 35,311,349 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v0934,501,614 - 34,502,680 (-)NCBIMhudiblu_PPA_v0panPan3
CCL27
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11151,334,870 - 51,338,752 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1151,334,778 - 51,335,591 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1149,963,044 - 49,963,744 (-)NCBI
ROS_Cfam_1.01152,275,429 - 52,276,129 (-)NCBI
UMICH_Zoey_3.11150,938,131 - 50,938,831 (-)NCBI
UNSW_CanFamBas_1.01150,806,277 - 50,806,977 (-)NCBI
UU_Cfam_GSD_1.01151,571,050 - 51,571,750 (-)NCBI
Ccl27
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947166,195,467 - 166,196,232 (-)NCBI
SpeTri2.0NW_0049365242,743,106 - 2,743,759 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCL27
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1032,138,232 - 32,138,974 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11032,138,232 - 32,138,980 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21036,274,970 - 36,278,822 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CCL27
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11245,956,596 - 45,959,354 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1245,958,642 - 45,959,313 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603843,075,474 - 43,076,253 (+)NCBIVero_WHO_p1.0
Ccl27
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473639,055,726 - 39,057,630 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462473639,055,705 - 39,056,722 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
RH127366  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2556,946,843 - 56,947,061 (+)MAPPERmRatBN7.2
Rnor_6.0558,164,507 - 58,164,724NCBIRnor6.0
Rnor_5.0562,688,873 - 62,689,090UniSTSRnor5.0
RGSC_v3.4559,205,220 - 59,205,437UniSTSRGSC3.4
Celera555,538,998 - 55,539,215UniSTS
Cytogenetic Map5q22UniSTS
RH141539  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2556,941,240 - 56,941,390 (+)MAPPERmRatBN7.2
Rnor_6.0558,158,905 - 58,159,054NCBIRnor6.0
Rnor_5.0562,683,271 - 62,683,420UniSTSRnor5.0
RGSC_v3.4559,199,618 - 59,199,767UniSTSRGSC3.4
Celera555,533,396 - 55,533,545UniSTS
Cytogenetic Map5q22UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5190450412Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)572947086724018Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5228222669540447Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)5982326699753708Rat
1641903Alcrsp3Alcohol response QTL 3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)51268928557689285Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512789751113558310Rat
1600358Mamtr5Mammary tumor resistance QTL 5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51887394763873947Rat
1358353Srcrtb2Stress Responsive Cort Basal QTL 23.480.003blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)51887394774251464Rat
8552954Pigfal14Plasma insulin-like growth factor 1 level QTL 149blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)52122674466226744Rat
1578767Stresp17Stress response QTL 174.30.01blood aldosterone amount (VT:0005346)plasma aldosterone level (CMO:0000551)52795544072955440Rat
1578776Stresp18Stress response QTL 182.9thymus mass (VT:0004954)thymus wet weight (CMO:0000855)52795544072955440Rat
6903292Stl28Serum triglyceride level QTL 282.60.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)52851548973515489Rat
6903306Scl35Serum cholesterol QTL 352.60.0073blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)52851548973515489Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)531663789131345958Rat
1598807Glom12Glomerulus QTL 122.7kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)53321566578215665Rat
1298067Scl15Serum cholesterol level QTL 154.80.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53321566578215665Rat
1302786Kidm8Kidney mass QTL 828.15kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)53321566578215665Rat
1576317Eutr2Estrogen induced uterine response QTL 20.01uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)534730116104251008Rat
2316959Gluco59Glucose level QTL 594.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)534944474113558310Rat
1641922Alcrsp8Alcohol response QTL 8alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)53518915368564008Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)535189153141643988Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
1331773Scl26Serum cholesterol level QTL 263.065blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)54372665686724018Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)543726656129132602Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
1300115Hrtrt7Heart rate QTL 72.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)54786906290099692Rat
9589025Epfw7Epididymal fat weight QTL 720.660.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)54946360094463600Rat
7411561Bw134Body weight QTL 134240.001body mass (VT:0001259)body weight gain (CMO:0000420)54946360094463600Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)550328551141643988Rat
2303615Vencon7Ventilatory control QTL 70.001respiration trait (VT:0001943)respiration rate (CMO:0000289)55098389595983895Rat
2303574Gluco42Glucose level QTL 422blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)55349671998496719Rat
61359EaexExperimental allergic encephalomyelitis QTL x3nervous system integrity trait (VT:0010566)post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)555715622100715622Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555805606132207589Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:47
Count of miRNA genes:42
Interacting mature miRNAs:43
Transcripts:ENSRNOT00000060594
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


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 renal system reproductive system respiratory system appendage
High
Medium 68 7
Low 3 41 55 39 9 39 4 7 6 35 34 11 4
Below cutoff 2 2 2 10 2 4 4 4

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001108660 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006238073 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006238074 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006238076 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006238077 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006238079 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006238080 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006238081 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008763627 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593471 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110223 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110225 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110226 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC110351 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC168893 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473962 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228666 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000161 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000060594   ⟹   ENSRNOP00000057330
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl556,941,402 - 56,945,921 (-)Ensembl
Rnor_6.0 Ensembl558,159,066 - 58,163,584 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000096308   ⟹   ENSRNOP00000089578
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl556,941,404 - 56,948,506 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000098813   ⟹   ENSRNOP00000090066
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl556,941,413 - 56,945,634 (-)Ensembl
RefSeq Acc Id: NM_001108660   ⟹   NP_001102130
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2556,941,402 - 56,945,921 (-)NCBI
Rnor_6.0558,159,066 - 58,163,584 (-)NCBI
Rnor_5.0562,683,432 - 62,690,538 (-)NCBI
RGSC_v3.4559,199,779 - 59,204,297 (-)RGD
Celera555,533,557 - 55,538,075 (-)RGD
Sequence:
RefSeq Acc Id: XM_006238073   ⟹   XP_006238135
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2556,941,409 - 56,948,503 (-)NCBI
Rnor_6.0558,159,073 - 58,166,179 (-)NCBI
Rnor_5.0562,683,432 - 62,690,538 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006238074   ⟹   XP_006238136
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2556,941,409 - 56,948,511 (-)NCBI
Rnor_6.0558,159,073 - 58,166,182 (-)NCBI
Rnor_5.0562,683,432 - 62,690,538 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006238077   ⟹   XP_006238139
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2556,941,409 - 56,946,017 (-)NCBI
Rnor_6.0558,159,073 - 58,163,688 (-)NCBI
Rnor_5.0562,683,432 - 62,690,538 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006238079   ⟹   XP_006238141
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2556,941,409 - 56,946,028 (-)NCBI
Rnor_6.0558,159,073 - 58,163,689 (-)NCBI
Rnor_5.0562,683,432 - 62,690,538 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006238080   ⟹   XP_006238142
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2556,945,016 - 56,946,028 (-)NCBI
Rnor_6.0558,162,680 - 58,163,688 (-)NCBI
Rnor_5.0562,683,432 - 62,690,538 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006238081   ⟹   XP_006238143
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2556,941,409 - 56,942,993 (-)NCBI
Rnor_6.0558,159,073 - 58,160,657 (-)NCBI
Rnor_5.0562,683,432 - 62,690,538 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008763627   ⟹   XP_008761849
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2556,941,409 - 56,948,503 (-)NCBI
Rnor_6.0558,159,073 - 58,166,180 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017593471   ⟹   XP_017448960
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2556,945,015 - 56,948,503 (-)NCBI
Rnor_6.0558,162,680 - 58,166,179 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039110223   ⟹   XP_038966151
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2556,941,409 - 56,945,906 (-)NCBI
RefSeq Acc Id: XM_039110225   ⟹   XP_038966153
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2556,945,015 - 56,945,906 (-)NCBI
RefSeq Acc Id: XM_039110226   ⟹   XP_038966154
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2556,945,015 - 56,946,017 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001102130   ⟸   NM_001108660
- UniProtKB: D4AAL6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006238136   ⟸   XM_006238074
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006238135   ⟸   XM_006238073
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006238139   ⟸   XM_006238077
- Peptide Label: isoform X3
- UniProtKB: D4AAL6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006238141   ⟸   XM_006238079
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006238143   ⟸   XM_006238081
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006238142   ⟸   XM_006238080
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_008761849   ⟸   XM_008763627
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017448960   ⟸   XM_017593471
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: ENSRNOP00000057330   ⟸   ENSRNOT00000060594
RefSeq Acc Id: XP_038966151   ⟸   XM_039110223
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038966154   ⟸   XM_039110226
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038966153   ⟸   XM_039110225
- Peptide Label: isoform X7
RefSeq Acc Id: ENSRNOP00000089578   ⟸   ENSRNOT00000096308
RefSeq Acc Id: ENSRNOP00000090066   ⟸   ENSRNOT00000098813
Protein Domains
SCY

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4AAL6-F1-model_v2 AlphaFold D4AAL6 1-164 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13693661
Promoter ID:EPDNEW_R4185
Type:single initiation site
Name:Ccl27_1
Description:C-C motif chemokine ligand 27
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0558,163,621 - 58,163,681EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304660 AgrOrtholog
BioCyc Gene G2FUF-41540 BioCyc
Ensembl Genes ENSRNOG00000039530 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000057330 ENTREZGENE
  ENSRNOP00000057330.2 UniProtKB/TrEMBL
  ENSRNOP00000089578 ENTREZGENE
  ENSRNOP00000089578.1 UniProtKB/TrEMBL
  ENSRNOP00000090066.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000060594 ENTREZGENE
  ENSRNOT00000060594.3 UniProtKB/TrEMBL
  ENSRNOT00000096308 ENTREZGENE
  ENSRNOT00000096308.1 UniProtKB/TrEMBL
  ENSRNOT00000098813.1 UniProtKB/TrEMBL
InterPro Chemokine_IL8-like_dom UniProtKB/TrEMBL
  Interleukin_8-like_sf UniProtKB/TrEMBL
KEGG Report rno:362505 UniProtKB/TrEMBL
NCBI Gene 362505 ENTREZGENE
Pfam IL8 UniProtKB/TrEMBL
PhenoGen Ccl27 PhenoGen
SMART SCY UniProtKB/TrEMBL
Superfamily-SCOP Chemokine_IL8 UniProtKB/TrEMBL
UniProt A0A8I6AC23_RAT UniProtKB/TrEMBL
  A0A8I6AM96_RAT UniProtKB/TrEMBL
  D4AAL6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-08 Ccl27  C-C motif chemokine ligand 27  Ccl27  chemokine (C-C motif) ligand 27  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Ccl27  chemokine (C-C motif) ligand 27   Ccl27_predicted  chemokine (C-C motif) ligand 27 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Ccl27_predicted  chemokine (C-C motif) ligand 27 (predicted)      Symbol and Name status set to approved 70820 APPROVED