Mir875 (microRNA 875) - Rat Genome Database

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Gene: Mir875 (microRNA 875) Rattus norvegicus
Analyze
Symbol: Mir875
Name: microRNA 875
RGD ID: 2325477
Description: Predicted to be involved in several processes, including miRNA-mediated gene silencing by inhibition of translation; odontoblast differentiation; and positive regulation of dentin-containing tooth bud formation by mesenchymal-epithelial signaling. Orthologous to human MIR875 (microRNA 875); INTERACTS WITH 1-naphthyl isothiocyanate; 3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione (ortholog); propiconazole (ortholog).
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: microRNA mir-875; rno-mir-875
RGD Orthologs
Human
Mouse
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8768,747,106 - 68,747,178 (-)NCBIGRCr8
mRatBN7.2766,861,955 - 66,862,027 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl766,861,955 - 66,862,027 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx768,750,468 - 68,750,540 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0770,953,083 - 70,953,155 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0770,820,958 - 70,821,030 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0774,423,233 - 74,423,305 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl774,423,233 - 74,423,305 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0774,588,190 - 74,588,262 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera763,946,559 - 63,946,631 (-)NCBICelera
Cytogenetic Map7q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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:16381832   PMID:18215311   PMID:33649852  


Genomics

Comparative Map Data
Mir875
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8768,747,106 - 68,747,178 (-)NCBIGRCr8
mRatBN7.2766,861,955 - 66,862,027 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl766,861,955 - 66,862,027 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx768,750,468 - 68,750,540 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0770,953,083 - 70,953,155 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0770,820,958 - 70,821,030 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0774,423,233 - 74,423,305 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl774,423,233 - 74,423,305 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0774,588,190 - 74,588,262 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera763,946,559 - 63,946,631 (-)NCBICelera
Cytogenetic Map7q22NCBI
MIR875
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38899,536,786 - 99,536,861 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl899,536,786 - 99,536,861 (-)EnsemblGRCh38hg38GRCh38
GRCh378100,549,014 - 100,549,089 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 368100,618,189 - 100,618,264 (-)NCBINCBI36Build 36hg18NCBI36
Celera896,734,748 - 96,734,823 (-)NCBICelera
Cytogenetic Map8q22.2NCBI
HuRef895,751,948 - 95,752,023 (-)NCBIHuRef
CHM1_18100,589,957 - 100,590,032 (-)NCBICHM1_1
T2T-CHM13v2.08100,661,780 - 100,661,855 (-)NCBIT2T-CHM13v2.0
Mir875
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391535,661,116 - 35,661,193 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1535,661,116 - 35,661,193 (-)EnsemblGRCm39 Ensembl
GRCm381535,660,970 - 35,661,047 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1535,660,970 - 35,661,047 (-)EnsemblGRCm38mm10GRCm38
MGSCv371535,590,725 - 35,590,802 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera1536,281,804 - 36,281,881 (-)NCBICelera
Cytogenetic Map15B3.1NCBI
cM Map1514.46NCBI

miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:1471
Count of gene targets:1296
Count of transcripts:1365
Interacting mature miRNAs:rno-miR-875
Prediction methods:Microtar, Miranda, Pita, 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
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)7946224698011544Rat
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)71965431784928080Rat
7411569Bw137Body weight QTL 1370.001body mass (VT:0001259)body weight gain (CMO:0000420)72192119566921195Rat
1641885Alcrsp9Alcohol response QTL 9alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)72409960669099606Rat
1549840Bss5Bone structure and strength QTL 59.8femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)72475184169751841Rat
10402855Bp379Blood pressure QTL 3790.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)72940968374409683Rat
1300127Srn1Serum renin concentration QTL 13.87blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)72940968384928080Rat
10755453Coatc12Coat color QTL 120coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)73111283276112832Rat
7411605Foco14Food consumption QTL 1424.10.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)73429328279293282Rat
631534Lnnr1Liver neoplastic nodule remodeling QTL 13.850.001liver integrity trait (VT:0010547)liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)73429328279293282Rat
631513Scl7Serum cholesterol level QTL 74.1blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)73796056982960569Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)741333674119109060Rat
634326Hc3Hypercalciuria QTL 32.1urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)74278731487787314Rat
10053722Scort27Serum corticosterone level QTL 272.410.0083blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)74322875088228750Rat
1358361Sradr5Stress Responsive Adrenal Weight QTL 55.55adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)743747012108555253Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)743747099102228765Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)744421311118198041Rat
61428Scl3Serum cholesterol level QTL 33.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)74486753389867533Rat
738030Anxrr8Anxiety related response QTL 84.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)74659007091590070Rat
2293696Bmd32Bone mineral density QTL 325.10.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)74765143992651439Rat
2293707Bss32Bone structure and strength QTL 327.640.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)74765143992651439Rat
2300178Bmd54Bone mineral density QTL 545.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)74765143992651439Rat
2293644Bmd29Bone mineral density QTL 295.40.0001femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)74765143992651439Rat
2293667Bss42Bone structure and strength QTL 427.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)74765143992651439Rat
2293678Bss24Bone structure and strength QTL 246.710.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)74765143992651439Rat
2293685Bmd21Bone mineral density QTL 214.20.0003femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)74765143992651439Rat
1300151Bp181Blood pressure QTL 1813.36arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)753612714103945643Rat
2317035Aia16Adjuvant induced arthritis QTL 162.71joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)759238038104238038Rat
1298528Bp169Blood pressure QTL 1690.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)761074194106074194Rat
1559283Emca4Estrogen-induced mammary cancer QTL 43.7mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)762004452101773158Rat
1576303Ept7Estrogen-induced pituitary tumorigenesis QTL 73.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)762004452101773158Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat


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 1
Low 3 7 17 4 17 4 4 4 10 8 10 10 4
Below cutoff 1 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_032755 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000063101
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl766,861,955 - 66,862,027 (-)Ensembl
Rnor_6.0 Ensembl774,423,233 - 74,423,305 (-)Ensembl
RefSeq Acc Id: NR_032755
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8768,747,106 - 68,747,178 (-)NCBI
mRatBN7.2766,861,955 - 66,862,027 (-)NCBI
Rnor_6.0774,423,233 - 74,423,305 (-)NCBI
Rnor_5.0774,588,190 - 74,588,262 (-)NCBI
Celera763,946,559 - 63,946,631 (-)NCBI
Sequence:
Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2325477 AgrOrtholog
BioCyc Gene G2FUF-33658 BioCyc
Ensembl Genes ENSRNOG00000041348 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000063101 ENTREZGENE
miRBase MI0012604 ENTREZGENE
NCBI Gene 100314134 ENTREZGENE
PhenoGen Mir875 PhenoGen
RatGTEx ENSRNOG00000041348 RatGTEx
RNAcentral URS0000312ECD RNACentral
  URS000075DD17 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-14 Mir875  microRNA 875  Mir875  microRNA mir-875  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-06-02 Mir875  microRNA mir-875      Symbol and Name status set to provisional 70820 PROVISIONAL