Cd164 (CD164 molecule) - Rat Genome Database

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Gene: Cd164 (CD164 molecule) Rattus norvegicus
Analyze
Symbol: Cd164
Name: CD164 molecule
RGD ID: 70942
Description: Predicted to be involved in muscle organ development. Predicted to act upstream of or within heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules. Located in endosome. Human ortholog(s) of this gene implicated in autosomal dominant nonsyndromic deafness 66. Orthologous to human CD164 (CD164 molecule); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: CD164 antigen; CD164 molecule, sialomucin; endolyn; MGC-24; MGC-24v; MUC-24; multi-glycosylated core protein 24; sialomucin core protein 24
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
GRCr82046,606,439 - 46,618,015 (+)NCBIGRCr8
mRatBN7.22045,024,051 - 45,035,628 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2045,023,973 - 45,035,634 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2046,741,543 - 46,753,119 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02046,391,718 - 46,403,294 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02047,098,205 - 47,109,771 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02046,250,418 - 46,261,994 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2046,250,363 - 46,261,994 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02047,942,773 - 47,954,349 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42045,486,590 - 45,498,166 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12045,509,600 - 45,521,176 (+)NCBI
Celera2054,918,183 - 54,929,760 (-)NCBICelera
Cytogenetic Map20q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
endosome  (IBA,IDA,IEA,ISO)
endosome membrane  (IEA)
lysosomal membrane  (IEA)
lysosome  (IBA,IEA,ISO)
membrane  (IEA)
plasma membrane  (ISO,ISS)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. CD164 promotes lung tumor-initiating cells with stem cell activity and determines tumor growth and drug resistance via Akt/mTOR signaling. Chen WL, etal., Oncotarget. 2016 Aug 9. doi: 10.18632/oncotarget.11132.
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. Endolyn is a mucin-like type I membrane protein targeted to lysosomes by its cytoplasmic tail. Ihrke G, etal., Biochem J 2000 Jan 15;345 Pt 2:287-96.
5. Gene Data Set MGD Curation, June 12, 2002
6. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:10491205   PMID:11027692   PMID:14699065   PMID:22855528   PMID:26197441  


Genomics

Comparative Map Data
Cd164
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82046,606,439 - 46,618,015 (+)NCBIGRCr8
mRatBN7.22045,024,051 - 45,035,628 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2045,023,973 - 45,035,634 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2046,741,543 - 46,753,119 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02046,391,718 - 46,403,294 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02047,098,205 - 47,109,771 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02046,250,418 - 46,261,994 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2046,250,363 - 46,261,994 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02047,942,773 - 47,954,349 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42045,486,590 - 45,498,166 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12045,509,600 - 45,521,176 (+)NCBI
Celera2054,918,183 - 54,929,760 (-)NCBICelera
Cytogenetic Map20q12NCBI
CD164
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386109,366,514 - 109,382,467 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6109,366,514 - 109,382,467 (-)EnsemblGRCh38hg38GRCh38
GRCh376109,687,717 - 109,703,670 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366109,794,414 - 109,810,340 (-)NCBINCBI36Build 36hg18NCBI36
Build 346109,794,415 - 109,810,340NCBI
Celera6110,434,305 - 110,450,350 (-)NCBICelera
Cytogenetic Map6q21NCBI
HuRef6107,253,904 - 107,269,946 (-)NCBIHuRef
CHM1_16109,950,828 - 109,966,874 (-)NCBICHM1_1
T2T-CHM13v2.06110,544,551 - 110,560,504 (-)NCBIT2T-CHM13v2.0
Cd164
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391041,395,496 - 41,407,038 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1041,395,410 - 41,407,044 (+)EnsemblGRCm39 Ensembl
GRCm381041,519,500 - 41,531,042 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1041,519,414 - 41,531,048 (+)EnsemblGRCm38mm10GRCm38
MGSCv371041,239,306 - 41,250,848 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361041,207,915 - 41,219,457 (+)NCBIMGSCv36mm8
Celera1042,405,747 - 42,417,290 (+)NCBICelera
Cytogenetic Map10B2NCBI
cM Map1022.46NCBI
Cd164
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495541134,423,727 - 34,439,295 (-)NCBIChiLan1.0ChiLan1.0
CD164
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25129,375,156 - 129,394,682 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16127,266,493 - 127,284,189 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06107,169,540 - 107,185,815 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16111,218,303 - 111,234,595 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6111,218,303 - 111,234,203 (-)Ensemblpanpan1.1panPan2
CD164
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11266,295,444 - 66,309,691 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1266,297,248 - 66,310,186 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1266,115,241 - 66,129,486 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01267,178,245 - 67,192,476 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1267,175,654 - 67,192,972 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11266,528,513 - 66,542,710 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01266,377,373 - 66,391,557 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01266,649,181 - 66,663,417 (-)NCBIUU_Cfam_GSD_1.0
Cd164
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946101,235,851 - 101,250,004 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049365645,510,718 - 5,522,637 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CD164
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl175,441,575 - 75,458,145 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1175,441,568 - 75,458,140 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2184,719,539 - 84,735,878 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CD164
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11364,482,079 - 64,498,540 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1364,481,790 - 64,499,135 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604036,773,505 - 36,790,192 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cd164
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624916643,145 - 656,266 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cd164
50 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:837
Count of miRNA genes:322
Interacting mature miRNAs:432
Transcripts:ENSRNOT00000000334
Prediction methods:Microtar, Miranda, Targetscan
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201175751554435887Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201175751554435887Rat
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)201761783247606836Rat
2317880Alcrsp25Alcohol response QTL 252.3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)201769755054435887Rat
2303626Vencon10Ventilatory control QTL 100.001respiration trait (VT:0001943)respiration rate (CMO:0000289)201919072154435887Rat
2303578Gluco50Glucose level QTL 502blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)202510672254435887Rat
2303587Bw93Body weight QTL 9313body mass (VT:0001259)body weight (CMO:0000012)202510672254435887Rat
2300188Bmd68Bone mineral density QTL 686.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)202510672254435887Rat
1331747Hrtrt16Heart rate QTL 163.163heart pumping trait (VT:2000009)heart rate (CMO:0000002)202520973454435887Rat
1598869Memor6Memory QTL 63.1exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)202924438854435887Rat

Markers in Region
RH128677  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22045,035,445 - 45,035,597 (+)MAPPERmRatBN7.2
Rnor_6.02046,261,812 - 46,261,963NCBIRnor6.0
Rnor_5.02047,954,167 - 47,954,318UniSTSRnor5.0
RGSC_v3.42045,497,984 - 45,498,135UniSTSRGSC3.4
Celera2054,918,214 - 54,918,365UniSTS
RH 3.4 Map20483.5UniSTS
Cytogenetic Map20q12UniSTS
RH131476  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22045,033,615 - 45,033,822 (+)MAPPERmRatBN7.2
Rnor_6.02046,259,982 - 46,260,188NCBIRnor6.0
Rnor_5.02047,952,337 - 47,952,543UniSTSRnor5.0
RGSC_v3.42045,496,154 - 45,496,360UniSTSRGSC3.4
Celera2054,919,989 - 54,920,195UniSTS
RH 3.4 Map20485.21UniSTS
Cytogenetic Map20q12UniSTS


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 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000334   ⟹   ENSRNOP00000000334
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2045,024,029 - 45,035,634 (+)Ensembl
Rnor_6.0 Ensembl2046,250,415 - 46,261,994 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076522   ⟹   ENSRNOP00000068255
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2045,023,973 - 45,035,631 (+)Ensembl
Rnor_6.0 Ensembl2046,250,363 - 46,261,994 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000101562   ⟹   ENSRNOP00000092693
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2045,023,983 - 45,035,625 (+)Ensembl
RefSeq Acc Id: NM_031812   ⟹   NP_114000
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82046,606,439 - 46,618,015 (+)NCBI
mRatBN7.22045,024,051 - 45,035,628 (+)NCBI
Rnor_6.02046,250,418 - 46,261,994 (+)NCBI
Rnor_5.02047,942,773 - 47,954,349 (+)NCBI
RGSC_v3.42045,486,590 - 45,498,166 (+)RGD
Celera2054,918,183 - 54,929,760 (-)RGD
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_114000   ⟸   NM_031812
- Peptide Label: precursor
- UniProtKB: Q9QX82 (UniProtKB/Swiss-Prot),   A0A096MJT5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000000334   ⟸   ENSRNOT00000000334
RefSeq Acc Id: ENSRNOP00000068255   ⟸   ENSRNOT00000076522
RefSeq Acc Id: ENSRNOP00000092693   ⟸   ENSRNOT00000101562

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9QX82-F1-model_v2 AlphaFold Q9QX82 1-195 view protein structure

Transcriptome

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

Promoters
RGD ID:13701667
Promoter ID:EPDNEW_R12188
Type:initiation region
Name:Cd164_1
Description:CD164 molecule
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_6.02046,250,398 - 46,250,458EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:70942 AgrOrtholog
BioCyc Gene G2FUF-3394 BioCyc
Ensembl Genes ENSRNOG00000000304 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055000701 UniProtKB/Swiss-Prot
  ENSRNOG00060007164 UniProtKB/Swiss-Prot
  ENSRNOG00065008557 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000000334.7 UniProtKB/TrEMBL
  ENSRNOT00000076522.3 UniProtKB/TrEMBL
  ENSRNOT00000101562 ENTREZGENE
  ENSRNOT00000101562.1 UniProtKB/Swiss-Prot
  ENSRNOT00055001197 UniProtKB/Swiss-Prot
  ENSRNOT00060011793 UniProtKB/Swiss-Prot
  ENSRNOT00065013603 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:5599253 IMAGE-MGC_LOAD
InterPro CD164_MGC24 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:83689 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72385 IMAGE-MGC_LOAD
NCBI Gene 83689 ENTREZGENE
PANTHER PTHR11337 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SIALOMUCIN CORE PROTEIN 24 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam MGC-24 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cd164 PhenoGen
PRINTS CD164ANTIGEN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000000304 RatGTEx
  ENSRNOG00055000701 RatGTEx
  ENSRNOG00060007164 RatGTEx
  ENSRNOG00065008557 RatGTEx
UniProt A0A096MJT5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2PY63_RAT UniProtKB/TrEMBL
  MUC24_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-13 Cd164  CD164 molecule  Cd164  CD164 molecule, sialomucin  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-06-27 Cd164  Cd164 molecule, sialomucin  Cd164  CD164 antigen  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-06-27 Cd164  CD164 molecule, sialomucin  Cd164  Cd164 molecule, sialomucin  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to lysosomal and endosomal compartments and also subapical compartments 70675
gene_protein the cytoplasmic tail is necessary for targeting to endosomes and lysosomes 70675