4933427D06Rik (RIKEN cDNA 4933427D06 gene) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: 4933427D06Rik (RIKEN cDNA 4933427D06 gene) Mus musculus
Analyze
Symbol: 4933427D06Rik
Name: RIKEN cDNA 4933427D06 gene
RGD ID: 1617349
MGI Page MGI
Description: ENCODES an ncrna that exhibits identical protein binding (ortholog); ASSOCIATED WITH chromosome 13q14 deletion syndrome (ortholog); intellectual disability (ortholog); INTERACTS WITH antirheumatic drug (ortholog); valproic acid (ortholog)
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC232217; MGC107427; uncharacterized protein LOC232217
RGD Orthologs
Human
Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39689,073,092 - 89,087,021 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl689,073,092 - 89,087,013 (+)EnsemblGRCm39 Ensembl
GRCm38689,096,110 - 89,110,039 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl688,950,683 - 89,110,031 (+)EnsemblGRCm38mm10GRCm38
MGSCv37689,046,109 - 89,060,031 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36689,061,821 - 89,075,671 (+)NCBIMGSCv36mm8
Celera691,033,099 - 91,047,071 (+)NCBICelera
Cytogenetic Map6D1NCBI
cM Map639.79NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11544199   PMID:12466851   PMID:12477932   PMID:15317747   PMID:16141072   PMID:16141073   PMID:21677750  
PMID:29459677   PMID:37196079  


Genomics

Comparative Map Data
4933427D06Rik
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39689,073,092 - 89,087,021 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl689,073,092 - 89,087,013 (+)EnsemblGRCm39 Ensembl
GRCm38689,096,110 - 89,110,039 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl688,950,683 - 89,110,031 (+)EnsemblGRCm38mm10GRCm38
MGSCv37689,046,109 - 89,060,031 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36689,061,821 - 89,075,671 (+)NCBIMGSCv36mm8
Celera691,033,099 - 91,047,071 (+)NCBICelera
Cytogenetic Map6D1NCBI
cM Map639.79NCBI
PRR20E
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381357,167,197 - 57,170,218 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1357,167,197 - 57,170,218 (+)EnsemblGRCh38hg38GRCh38
GRCh371357,741,331 - 57,744,352 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361356,639,332 - 56,642,353 (+)NCBINCBI36Build 36hg18NCBI36
Cytogenetic Map13q21.1NCBI
T2T-CHM13v2.01356,384,066 - 56,387,086 (+)NCBIT2T-CHM13v2.0
Prr20e
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84123,123,877 - 123,132,004 (+)NCBIGRCr8
mRatBN7.24121,566,632 - 121,574,734 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4121,571,797 - 121,573,140 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.04121,040,810 - 121,053,910 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4121,046,277 - 121,052,552 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04186,280,312 - 186,293,819 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44123,199,122 - 123,205,658 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera4110,513,416 - 110,526,620 (+)NCBICelera
Cytogenetic Map4q34NCBI

Variants

.
Variants in 4933427D06Rik
864 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1600
Count of miRNA genes:471
Interacting mature miRNAs:551
Transcripts:ENSMUST00000068968, ENSMUST00000153517, ENSMUST00000153981, ENSMUST00000168837
Prediction methods: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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4142271Egq8_mearly growth QTL 8 (mouse)Not determined450382396633110Mouse
10043864T2dm4sa_mtype 2 diabetes mellitus 4 in SMXA RI mice (mouse)Not determined683690851146954059Mouse
1301521Pas1c_mpulmonary adenoma susceptibility 1c (mouse)Not determined671958006105958152Mouse
14697704Stsl4_mSalmonella typhimurium susceptibility locus 4 (mouse)67707698389976982Mouse
10412119Stv_mstriatal volumne (mouse)Not determined660026991100026967Mouse
1300954Fcsa1_mfemoral cross-sectional area 1 (mouse)Not determined671958006105958152Mouse
13824985Alh1_mamplitude of lateral head displacement 1 (mouse)67797698396976961Mouse
4142259Tabw2_mtally ho associated body weight 2 (mouse)Not determined46912919136400690Mouse
25314319Histh6_mhistamine hypersensitivity 6 (mouse)648696934125336963Mouse
12792979Fbmd2_mfemoral bone mineral density 2, females only (mouse)675026989115026943Mouse
1301571Arrd1_mage-related retinal degeneration 1 (mouse)Not determined67552133992584431Mouse
4142126W3q3_mweight 3 weeks QTL 3 (mouse)Not determined450382396633110Mouse
1300674Nidd3n_mnon-insulin-dependent diabetes mellitus 3 in NSY (mouse)Not determined67552133994202936Mouse
25314320Histh5_mhistamine hypersensitivity 5 (mouse)648696934148351498Mouse
1558977Skmw10_mskeletal muscle weight 10 (mouse)Not determined65842456692424693Mouse
1300869Stheal5_msoft tissue heal 5 (mouse)Not determined671552042105552160Mouse
1302020Bbaa20_mB.burgdorferi-associated arthritis 20 (mouse)Not determined67129960593441074Mouse
1301962Eila2_methanol induced locomotor activity 2 (mouse)Not determined648703490125333748Mouse
1301320Ots1_movarian teratoma susceptibility 1 (mouse)Not determined675424566104480516Mouse
10043972Obq28_mobesity QTL 28 (mouse)Not determined65851741692517416Mouse
1301262Gasa3_mgastritis type A susceptibility locus 3 (mouse)Not determined688982366122982564Mouse
1558984Cplaq9_mcircadian period of locomotor activity 9 (mouse)Not determined63864656092584431Mouse
10412157Fl1n_mfatty liver 1 in NSY (mouse)Not determined645290993128811995Mouse
11251720Ewc4_methanol withdrawal and consumption 4 (mouse)684099474118099474Mouse
1301744Hdlq11_mHDL QTL 11 (mouse)Not determined687480321121480516Mouse
25440480Moaq2_mmodifier of alien QTL 2 (mouse)63050001117476961Mouse
26884414Bzwq12_mbi-zygomatic width QTL 12, 16 week (mouse)63400000139076998Mouse
10043901Pfat5_mpredicted fat percentage 5 (mouse)Not determined675584287109584431Mouse
1301687Mnic2_mmacronutrient intake (mouse)Not determined686783787113521563Mouse
4142361W10q11_mweight 10 weeks QTL 11 (mouse)Not determined450382396633110Mouse
1301813Skl3_mskeletal size (tail length) 3 (mouse)Not determined670402880104403016Mouse
4142232W6q4_mweight 6 weeks QTL 4 (mouse)Not determined450382396633110Mouse
1357683Igf1sl1_mIGF-1 serum levels 1 (mouse)Not determined652138693116132228Mouse
1301876Bits2_mbitterness sensitivity 2 (mouse)Not determined670402880104403016Mouse
1357875Pfat2_mpredicted fat percentage 2 (mouse)Not determined676440930110441074Mouse
15039373Adip28_madiposity 28 (mouse)65628519490285194Mouse
15039375Bw41_mbody weight QTL 41 (mouse)65628519490285194Mouse
1301369Im4_mimmunoregulatory 4 (mouse)Not determined66346172197461888Mouse
10412208Cypr4_mcytokine production 4 (mouse)Not determined675693484109693678Mouse
1300650Bw18_mbody weight QTL 18 (mouse)Not determined666690851100691013Mouse
1301034Egrm2_mearly growth rate (mouse)Not determined670402880104403016Mouse
14696731Pairq1_mP. aeruginosa infection resistance QTL 1 (mouse)681476981102176961Mouse
13506930Recrq9_mrecombination rate in male meiosis QTL 9 (mouse)673476983134676963Mouse
10412195Efw_mepididymal fat weight (mouse)Not determined67552133994202936Mouse
1301740Bwq2_mbody weight QTL 2 (mouse)Not determined66003466394034782Mouse
4141376Dbm1_mdiabetes modifier 1 (mouse)Not determined678606487121092347Mouse

Markers in Region
UniSTS:235493  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38689,109,517 - 89,109,759UniSTSGRCm38
MGSCv37689,059,511 - 89,059,753UniSTSGRCm37
Celera691,046,551 - 91,046,793UniSTS
Cytogenetic Map6D1UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000068968
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl689,073,092 - 89,087,013 (+)Ensembl
GRCm38.p6 Ensembl689,096,110 - 89,110,031 (+)Ensembl
Ensembl Acc Id: ENSMUST00000153517
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl689,073,092 - 89,084,816 (+)Ensembl
GRCm38.p6 Ensembl689,096,110 - 89,107,834 (+)Ensembl
Ensembl Acc Id: ENSMUST00000153981
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl689,078,000 - 89,085,103 (+)Ensembl
GRCm38.p6 Ensembl689,101,018 - 89,108,121 (+)Ensembl
Ensembl Acc Id: ENSMUST00000168837
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl688,927,665 - 89,087,012 (+)Ensembl
GRCm38.p6 Ensembl688,950,683 - 89,110,030 (+)Ensembl
RefSeq Acc Id: NR_134977
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39689,073,092 - 89,087,021 (+)NCBI
GRCm38689,096,110 - 89,110,039 (+)NCBI
Sequence:
RefSeq Acc Id: NR_134978
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39689,073,092 - 89,087,021 (+)NCBI
GRCm38689,096,110 - 89,110,039 (+)NCBI
Sequence:
RefSeq Acc Id: NR_134979
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39689,078,000 - 89,087,021 (+)NCBI
GRCm38689,101,018 - 89,110,039 (+)NCBI
Sequence:
Protein Sequences
GenBank Protein AAH98480 (Get FASTA)   NCBI Sequence Viewer  
  BAC26859 (Get FASTA)   NCBI Sequence Viewer  
  EDK99263 (Get FASTA)   NCBI Sequence Viewer  

Promoters
RGD ID:6838755
Promoter ID:MM_KWN:46840
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:ES_Cell
Transcripts:NM_175017,   OTTMUST00000066797
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36689,045,971 - 89,046,471 (+)MPROMDB
RGD ID:6890392
Promoter ID:EPDNEW_M8647
Type:initiation region
Name:4933427D06Rik_1
Description:Mus musculus RIKEN cDNA 4933427D06 gene , transcript variant3, long non-coding RNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38689,096,110 - 89,096,170EPDNEW
RGD ID:15093129
Promoter ID:EPDNEWNC_M1029
Type:single initiation site
Name:4933427D06Rik_1
Description:RIKEN cDNA 4933427D06 gene [Source:MGISymbol;Acc:MGI:3026922]
SO ACC ID:SO:0000170
Source:EPDNEWNC (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38689,096,110 - 89,096,170EPDNEWNC

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000055403 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000068968 ENTREZGENE
InterPro PRR20 UniProtKB/TrEMBL
MGD MGI:3026922 ENTREZGENE
NCBI Gene 232217 ENTREZGENE
PANTHER PROLINE-RICH PROTEIN 20A-RELATED UniProtKB/TrEMBL
  PTHR38819 UniProtKB/TrEMBL
Pfam PRR20 UniProtKB/TrEMBL
PhenoGen 4933427D06Rik PhenoGen
RNAcentral URS00008C4150 RNACentral
  URS00008C415E RNACentral
  URS00008C42C2 RNACentral
  URS0000A764C2 RNACentral
  URS0000A7679E RNACentral
  URS0000A77509 RNACentral
UniProt Q4KMM7_MOUSE UniProtKB/TrEMBL
  Q8CDD1_MOUSE UniProtKB/TrEMBL