Mrps18c (mitochondrial ribosomal protein S18C) - Rat Genome Database

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Gene: Mrps18c (mitochondrial ribosomal protein S18C) Rattus norvegicus
Analyze
Symbol: Mrps18c
Name: mitochondrial ribosomal protein S18C
RGD ID: 1307997
Description: Predicted to enable small ribosomal subunit rRNA binding activity. Predicted to be a structural constituent of ribosome. Predicted to be involved in translation. Predicted to be part of mitochondrial small ribosomal subunit. Orthologous to human MRPS18C (mitochondrial ribosomal protein S18C); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 28S ribosomal protein S18c, mitochondrial; LOC289469; small ribosomal subunit protein bS18m
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8149,116,688 - 9,122,943 (-)NCBIGRCr8
mRatBN7.2148,812,301 - 8,818,538 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl148,791,330 - 8,818,516 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx148,780,210 - 8,786,437 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01410,080,058 - 10,086,285 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0148,776,671 - 8,782,898 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01410,440,691 - 10,446,909 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1410,440,691 - 10,446,909 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01410,388,657 - 10,394,875 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41410,096,209 - 10,102,427 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11410,096,518 - 10,102,420 (-)NCBI
Celera148,921,339 - 8,927,557 (-)NCBICelera
Cytogenetic Map14p22NCBI
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
translation  (IBA)

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11279123   PMID:18614015   PMID:25838379  


Genomics

Comparative Map Data
Mrps18c
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8149,116,688 - 9,122,943 (-)NCBIGRCr8
mRatBN7.2148,812,301 - 8,818,538 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl148,791,330 - 8,818,516 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx148,780,210 - 8,786,437 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01410,080,058 - 10,086,285 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0148,776,671 - 8,782,898 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01410,440,691 - 10,446,909 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1410,440,691 - 10,446,909 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01410,388,657 - 10,394,875 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41410,096,209 - 10,102,427 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11410,096,518 - 10,102,420 (-)NCBI
Celera148,921,339 - 8,927,557 (-)NCBICelera
Cytogenetic Map14p22NCBI
MRPS18C
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38483,456,058 - 83,462,298 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl483,455,932 - 83,469,735 (+)EnsemblGRCh38hg38GRCh38
GRCh37484,377,211 - 84,383,451 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36484,596,196 - 84,601,900 (+)NCBINCBI36Build 36hg18NCBI36
Build 34484,734,350 - 84,740,055NCBI
Celera481,667,571 - 81,673,381 (+)NCBICelera
Cytogenetic Map4q21.23NCBI
HuRef480,119,893 - 80,125,705 (+)NCBIHuRef
CHM1_1484,353,692 - 84,359,503 (+)NCBICHM1_1
T2T-CHM13v2.0486,786,125 - 86,792,364 (+)NCBIT2T-CHM13v2.0
Mrps18c
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395100,946,625 - 100,952,333 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5100,946,493 - 100,952,337 (+)EnsemblGRCm39 Ensembl
GRCm385100,798,759 - 100,804,467 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5100,798,627 - 100,804,471 (+)EnsemblGRCm38mm10GRCm38
MGSCv375101,227,778 - 101,233,486 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365101,039,061 - 101,044,769 (+)NCBIMGSCv36mm8
Celera598,126,835 - 98,132,542 (+)NCBICelera
Cytogenetic Map5E4NCBI
cM Map548.52NCBI
Mrps18c
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554746,274,545 - 6,280,871 (-)NCBIChiLan1.0ChiLan1.0
MRPS18C
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2346,587,778 - 46,607,621 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1446,777,156 - 46,796,992 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0440,734,852 - 40,740,333 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1446,580,220 - 46,586,823 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl446,580,225 - 46,586,823 (-)Ensemblpanpan1.1panPan2
MRPS18C
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1327,290,554 - 7,295,342 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl327,290,584 - 7,298,989 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3234,590,214 - 34,595,093 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0327,312,132 - 7,316,849 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl327,312,119 - 7,316,849 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1327,382,322 - 7,387,107 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0327,251,787 - 7,256,576 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03232,705,130 - 32,710,013 (-)NCBIUU_Cfam_GSD_1.0
Mrps18c
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244052855,033,401 - 5,062,174 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367381,216,237 - 1,224,009 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367381,219,210 - 1,223,991 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MRPS18C
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8135,015,413 - 135,026,064 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18135,019,702 - 135,026,719 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28144,316,519 - 144,322,536 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MRPS18C
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1731,847,043 - 31,852,309 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603710,442,566 - 10,448,041 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Mrps18c
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624900419,835 - 426,886 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Mrps18c
27 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:167
Count of miRNA genes:128
Interacting mature miRNAs:135
Transcripts:ENSRNOT00000002962
Prediction methods:Microtar, Miranda, Rnahybrid, 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
2300159Bmd61Bone mineral density QTL 615.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
2300183Bmd60Bone mineral density QTL 605.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
619619Rf4Renal disease susceptibility QTL 44.10.002urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141131407Rat
71115Niddm15Non-insulin dependent diabetes mellitus QTL 154.8blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14121760611030812Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14121760616960180Rat
724541Niddm53Non-insulin dependent diabetes mellitus QTL 530.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1438130749088978Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)14381307418274691Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)14381307418274691Rat
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14381307421217635Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14381307424531477Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14381307430767156Rat
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14826709053267090Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14826709053267090Rat

Markers in Region
RH131554  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2148,812,606 - 8,812,870 (+)MAPPERmRatBN7.2
Rnor_6.01410,440,997 - 10,441,260NCBIRnor6.0
Rnor_5.01410,388,963 - 10,389,226UniSTSRnor5.0
RGSC_v3.41410,096,515 - 10,096,778UniSTSRGSC3.4
Celera148,921,645 - 8,921,908UniSTS
RH 3.4 Map14152.28UniSTS
Cytogenetic Map14p22UniSTS


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: ENSRNOT00000002962   ⟹   ENSRNOP00000002962
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl148,812,113 - 8,818,516 (-)Ensembl
Rnor_6.0 Ensembl1410,440,691 - 10,446,909 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000102099   ⟹   ENSRNOP00000082782
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl148,791,330 - 8,818,516 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000110810   ⟹   ENSRNOP00000087564
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl148,792,989 - 8,818,516 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113506   ⟹   ENSRNOP00000081962
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl148,812,079 - 8,818,516 (-)Ensembl
RefSeq Acc Id: NM_001105996   ⟹   NP_001099466
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8149,116,688 - 9,122,906 (-)NCBI
mRatBN7.2148,812,301 - 8,818,520 (-)NCBI
Rnor_6.01410,440,691 - 10,446,909 (-)NCBI
Rnor_5.01410,388,657 - 10,394,875 (-)NCBI
RGSC_v3.41410,096,209 - 10,102,427 (-)RGD
Celera148,921,339 - 8,927,557 (-)RGD
Sequence:
RefSeq Acc Id: XM_063272897   ⟹   XP_063128967
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8149,117,014 - 9,122,943 (-)NCBI
RefSeq Acc Id: XM_063272898   ⟹   XP_063128968
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8149,117,191 - 9,122,943 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001099466   ⟸   NM_001105996
- UniProtKB: D4A4V1 (UniProtKB/TrEMBL),   A6K5X9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000002962   ⟸   ENSRNOT00000002962
RefSeq Acc Id: ENSRNOP00000082782   ⟸   ENSRNOT00000102099
RefSeq Acc Id: ENSRNOP00000081962   ⟸   ENSRNOT00000113506
RefSeq Acc Id: ENSRNOP00000087564   ⟸   ENSRNOT00000110810
RefSeq Acc Id: XP_063128967   ⟸   XM_063272897
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZU14 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063128968   ⟸   XM_063272898
- Peptide Label: isoform X2
- UniProtKB: A6K5Y1 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A4V1-F1-model_v2 AlphaFold D4A4V1 1-143 view protein structure

Transcriptome

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

Promoters
RGD ID:13699191
Promoter ID:EPDNEW_R9714
Type:multiple initiation site
Name:Mrps18c_1
Description:mitochondrial ribosomal protein S18C
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_6.01410,446,887 - 10,446,947EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307997 AgrOrtholog
BioCyc Gene G2FUF-16418 BioCyc
Ensembl Genes ENSRNOG00000002178 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002962 ENTREZGENE
  ENSRNOT00000002962.6 UniProtKB/TrEMBL
  ENSRNOT00000102099.1 UniProtKB/TrEMBL
  ENSRNOT00000110810.1 UniProtKB/TrEMBL
  ENSRNOT00000113506.1 UniProtKB/TrEMBL
Gene3D-CATH 4.10.640.10 UniProtKB/TrEMBL
InterPro Ribosomal_S18 UniProtKB/TrEMBL
  Ribosomal_S18_CS UniProtKB/TrEMBL
  Ribosomal_S18_sf UniProtKB/TrEMBL
KEGG Report rno:289469 UniProtKB/TrEMBL
NCBI Gene 289469 ENTREZGENE
PANTHER 28S RIBOSOMAL PROTEIN S18C, MITOCHONDRIAL UniProtKB/TrEMBL
  PTHR13479 UniProtKB/TrEMBL
Pfam Ribosomal_S18 UniProtKB/TrEMBL
PhenoGen Mrps18c PhenoGen
PRINTS RIBOSOMALS18 UniProtKB/TrEMBL
PROSITE RIBOSOMAL_S18 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000002178 RatGTEx
Superfamily-SCOP Ribosomal_S18 UniProtKB/TrEMBL
UniProt A0A8I5ZU14 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZUR8_RAT UniProtKB/TrEMBL
  A0A8I6A4E4_RAT UniProtKB/TrEMBL
  A6K5X9 ENTREZGENE, UniProtKB/TrEMBL
  A6K5Y1 ENTREZGENE, UniProtKB/TrEMBL
  D4A4V1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Mrps18c  mitochondrial ribosomal protein S18C   Mrps18c_predicted  mitochondrial ribosomal protein S18C (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Mrps18c_predicted  mitochondrial ribosomal protein S18C (predicted)      Symbol and Name status set to approved 70820 APPROVED