MIR30D (microRNA 30d) - Rat Genome Database

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Gene: MIR30D (microRNA 30d) Homo sapiens
Analyze
Symbol: MIR30D
Name: microRNA 30d
RGD ID: 1344201
HGNC Page HGNC
Description: Predicted to be involved in several processes, including cellular response to lipopolysaccharide; long-term synaptic potentiation; and sensory perception of sound.
Type: ncrna
RefSeq Status: PROVISIONAL
Also known as: mir-30d; MIRN30D
RGD Orthologs
Mouse
Rat
Dog
Pig
Alliance Genes
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl8134,804,876 - 134,804,945 (-)EnsemblGRCh38hg38GRCh38
GRCh388134,804,876 - 134,804,945 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh378135,817,119 - 135,817,188 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 368135,886,300 - 135,886,369 (-)NCBINCBI36hg18NCBI36
Celera8131,989,860 - 131,989,929 (-)NCBI
Cytogenetic Map8q24.22NCBI
HuRef8131,132,816 - 131,132,885 (-)NCBIHuRef
CHM1_18135,859,237 - 135,859,306 (-)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
1. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12007417   PMID:16381832   PMID:17604727   PMID:17616659   PMID:17989717   PMID:18766170   PMID:20935678   PMID:21037258   PMID:21741600   PMID:22058146   PMID:22782668   PMID:22902743  
PMID:23085757   PMID:23231923   PMID:23272089   PMID:23274497   PMID:23416459   PMID:24001895   PMID:24132643   PMID:24345332   PMID:25630974   PMID:25761682   PMID:25843294   PMID:25995320  
PMID:26395145   PMID:26432290   PMID:26501435   PMID:26646931   PMID:26897751   PMID:27099441   PMID:27141829   PMID:27176713   PMID:27481218   PMID:27571925   PMID:28184915   PMID:28207045  
PMID:28214846   PMID:28356144   PMID:28440426   PMID:28651493   PMID:28798470   PMID:28861760   PMID:29080678   PMID:29569755   PMID:29797600   PMID:29807362   PMID:29916747   PMID:29923255  
PMID:30029934   PMID:30132507   PMID:30243741   PMID:30266402   PMID:30804330   PMID:31926946   PMID:32615948   PMID:32770028   PMID:33079409   PMID:33691362  


Genomics

Comparative Map Data
MIR30D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl8134,804,876 - 134,804,945 (-)EnsemblGRCh38hg38GRCh38
GRCh388134,804,876 - 134,804,945 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh378135,817,119 - 135,817,188 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 368135,886,300 - 135,886,369 (-)NCBINCBI36hg18NCBI36
Celera8131,989,860 - 131,989,929 (-)NCBI
Cytogenetic Map8q24.22NCBI
HuRef8131,132,816 - 131,132,885 (-)NCBIHuRef
CHM1_18135,859,237 - 135,859,306 (-)NCBICHM1_1
Mir30d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391568,213,057 - 68,213,138 (-)NCBIGRCm39mm39
GRCm39 Ensembl1568,213,057 - 68,213,138 (-)Ensembl
GRCm381568,341,208 - 68,341,289 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1568,341,208 - 68,341,289 (-)EnsemblGRCm38mm10GRCm38
MGSCv371568,172,770 - 68,172,851 (-)NCBIGRCm37mm9NCBIm37
Celera1569,857,252 - 69,857,333 (-)NCBICelera
Cytogenetic Map15D2NCBI
Mir30d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27100,136,391 - 100,136,472 (-)NCBI
Rnor_6.0 Ensembl7109,286,463 - 109,286,544 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07109,286,463 - 109,286,544 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07109,228,641 - 109,228,722 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera796,647,647 - 96,647,728 (-)NCBICelera
Cytogenetic Map7q34NCBI
MIR30D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11330,910,306 - 30,910,365 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1330,910,306 - 30,910,365 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1330,885,535 - 30,885,594 (-)NCBI
ROS_Cfam_1.01331,276,123 - 31,276,182 (-)NCBI
UMICH_Zoey_3.11330,995,654 - 30,995,713 (-)NCBI
UNSW_CanFamBas_1.01331,094,620 - 31,094,679 (-)NCBI
UU_Cfam_GSD_1.01331,444,847 - 31,444,906 (-)NCBI
MIR30D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl46,948,669 - 6,948,747 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.146,948,669 - 6,948,747 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.246,713,518 - 6,713,596 (+)NCBISscrofa10.2Sscrofa10.2susScr3

Position Markers
RH48213  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh378135,817,117 - 135,817,254UniSTSGRCh37
Build 368135,886,299 - 135,886,436RGDNCBI36
Celera8131,989,858 - 131,989,995RGD
Cytogenetic Map8q24.22UniSTS
HuRef8131,132,814 - 131,132,951UniSTS
GeneMap99-GB4 RH Map8517.99UniSTS
NCBI RH Map81556.7UniSTS

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
MYBhsa-miR-30d-5pOncomiRDBexternal_infoNANA21187425
UBE2Ihsa-miR-30d-5pOncomiRDBexternal_infoNANA20498642
GNAI2hsa-miR-30d-5pOncomiRDBexternal_infoNANA20054866
CAMKVhsa-miR-30d-3pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248
GNAI2hsa-miR-30d-3pMirecordsexternal_infoNANA20054866
SMAD1hsa-miR-30d-5pMirtarbaseexternal_infoLuciferase reporter assay//Western blotFunctional MTI22253433
CASP3hsa-miR-30d-5pMirtarbaseexternal_infoLuciferase reporter assay//Western blotFunctional MTI22058146
GNAI2hsa-miR-30d-5pMirtarbaseexternal_infoWestern blot//Reporter assay;OtherFunctional MTI20054866
TP53hsa-miR-30d-5pMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blotFunctional MTI20935678
EZH2hsa-miR-30d-5pMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blotFunctional MTI22399519
GPR78hsa-miR-30d-5pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI23085757
RUNX2hsa-miR-30d-5pMirtarbaseexternal_infoReporter assay;Western blotFunctional MTI21767385
SINHCAFhsa-miR-30d-5pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248
GNAI2hsa-miR-30d-5pTarbaseexternal_infoReporter GenePOSITIVE
RUNX2hsa-miR-30d-5pTarbaseexternal_infoWesternblitPOSITIVE
BECN1hsa-miR-30d-5pOncomiRDBexternal_infoNANA23274497
SOCS1hsa-miR-30d-5pOncomiRDBexternal_infoNANA23231923
HSPA5hsa-miR-30d-5pOncomiRDBexternal_infoNANA23085757
EZH2hsa-miR-30d-5pOncomiRDBexternal_infoNANA22399519
GALNT7hsa-miR-30d-5pOncomiRDBexternal_infoNANA21741600

Predicted Targets
Summary Value
Count of predictions:37136
Count of gene targets:11188
Count of transcripts:23410
Interacting mature miRNAs:hsa-miR-30d-3p, hsa-miR-30d-5p
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.


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 adipose tissue appendage entire extraembryonic component
High
Medium
Low 8 5 7 2 44 2 5 3 4 11 7 3 2
Below cutoff 8 2 17 8 6 9 4 8 7 1 1 2

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000362283
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl8134,804,876 - 134,804,945 (-)Ensembl
RefSeq Acc Id: NR_029599
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh388134,804,876 - 134,804,945 (-)NCBI
GRCh378135,817,119 - 135,817,188 (-)RGD
Celera8131,989,860 - 131,989,929 (-)RGD
HuRef8131,132,816 - 131,132,885 (-)ENTREZGENE
CHM1_18135,859,237 - 135,859,306 (-)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 8q24.21-24.3(chr8:130115518-141228210)x3 copy number gain See cases [RCV000133621] Chr8:130115518..141228210 [GRCh38]
Chr8:131127764..142238309 [GRCh37]
Chr8:131196946..142307491 [NCBI36]
Chr8:8q24.21-24.3
pathogenic
GRCh38/hg38 8q22.1-24.3(chr8:94682154-145068656)x3 copy number gain See cases [RCV000134353] Chr8:94682154..145068656 [GRCh38]
Chr8:95694382..146294042 [GRCh37]
Chr8:95763558..146264846 [NCBI36]
Chr8:8q22.1-24.3
pathogenic
GRCh38/hg38 8q21.3-24.23(chr8:86300584-137022587)x3 copy number gain See cases [RCV000135621] Chr8:86300584..137022587 [GRCh38]
Chr8:87312813..138034830 [GRCh37]
Chr8:87381929..138104012 [NCBI36]
Chr8:8q21.3-24.23
pathogenic|likely pathogenic
GRCh38/hg38 8q24.22-24.3(chr8:130639182-145068712)x3 copy number gain See cases [RCV000137644] Chr8:130639182..145068712 [GRCh38]
Chr8:131651428..146294098 [GRCh37]
Chr8:131720610..146264902 [NCBI36]
Chr8:8q24.22-24.3
pathogenic|conflicting data from submitters
GRCh38/hg38 8q24.13-24.3(chr8:124498498-145068712)x3 copy number gain See cases [RCV000137346] Chr8:124498498..145068712 [GRCh38]
Chr8:125510739..146294098 [GRCh37]
Chr8:125579920..146264902 [NCBI36]
Chr8:8q24.13-24.3
pathogenic
GRCh38/hg38 8q24.22(chr8:134189112-135015642)x3 copy number gain See cases [RCV000138082] Chr8:134189112..135015642 [GRCh38]
Chr8:135201355..136027885 [GRCh37]
Chr8:135270537..136097067 [NCBI36]
Chr8:8q24.22
likely pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:241605-145054781)x3 copy number gain See cases [RCV000138643] Chr8:241605..145054781 [GRCh38]
Chr8:191605..146280167 [GRCh37]
Chr8:181605..146250971 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q21.3-24.3(chr8:87931152-145068712)x3 copy number gain See cases [RCV000138551] Chr8:87931152..145068712 [GRCh38]
Chr8:88943380..146294098 [GRCh37]
Chr8:89012496..146264902 [NCBI36]
Chr8:8q21.3-24.3
pathogenic
GRCh38/hg38 8q21.13-24.3(chr8:77480050-145068712)x3 copy number gain See cases [RCV000139036] Chr8:77480050..145068712 [GRCh38]
Chr8:78392286..146294098 [GRCh37]
Chr8:78554841..146264902 [NCBI36]
Chr8:8q21.13-24.3
pathogenic
GRCh38/hg38 8q22.1-24.3(chr8:97382873-145070385)x3 copy number gain See cases [RCV000140447] Chr8:97382873..145070385 [GRCh38]
Chr8:98395101..146295771 [GRCh37]
Chr8:98464277..146266575 [NCBI36]
Chr8:8q22.1-24.3
pathogenic
GRCh38/hg38 8q11.1-24.3(chr8:46031340-139285494)x3 copy number gain See cases [RCV000139539] Chr8:46031340..139285494 [GRCh38]
Chr8:46942962..140297737 [GRCh37]
Chr8:47062127..140366919 [NCBI36]
Chr8:8q11.1-24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:208048-145070385)x3 copy number gain See cases [RCV000141808] Chr8:208048..145070385 [GRCh38]
Chr8:158048..146295771 [GRCh37]
Chr8:148048..146266575 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q22.3-24.3(chr8:100867343-145070385)x3 copy number gain See cases [RCV000141694] Chr8:100867343..145070385 [GRCh38]
Chr8:101879571..146295771 [GRCh37]
Chr8:101948747..146266575 [NCBI36]
Chr8:8q22.3-24.3
pathogenic
GRCh38/hg38 8p21.3-q24.3(chr8:21291522-145070385)x3 copy number gain See cases [RCV000142021] Chr8:21291522..145070385 [GRCh38]
Chr8:21149033..146295771 [GRCh37]
Chr8:21193313..146266575 [NCBI36]
Chr8:8p21.3-q24.3
pathogenic
GRCh38/hg38 8q22.3-24.3(chr8:103306336-145068712)x3 copy number gain See cases [RCV000142810] Chr8:103306336..145068712 [GRCh38]
Chr8:104318564..146294098 [GRCh37]
Chr8:104387740..146264902 [NCBI36]
Chr8:8q22.3-24.3
pathogenic|likely pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:226452-145068712)x3 copy number gain See cases [RCV000142858] Chr8:226452..145068712 [GRCh38]
Chr8:176452..146294098 [GRCh37]
Chr8:166452..146264902 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q21.13-24.3(chr8:78614077-145054634)x3 copy number gain See cases [RCV000142597] Chr8:78614077..145054634 [GRCh38]
Chr8:79526312..146280020 [GRCh37]
Chr8:79688867..146250824 [NCBI36]
Chr8:8q21.13-24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:241530-145054634)x3 copy number gain See cases [RCV000148092] Chr8:241530..145054634 [GRCh38]
Chr8:191530..146280020 [GRCh37]
Chr8:181530..146250824 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q21.2-24.3(chr8:85765999-145070385)x3 copy number gain See cases [RCV000143659] Chr8:85765999..145070385 [GRCh38]
Chr8:86778228..146295771 [GRCh37]
Chr8:86863079..146266575 [NCBI36]
Chr8:8q21.2-24.3
pathogenic
GRCh38/hg38 8q24.13-24.3(chr8:124514090-145054634)x3 copy number gain See cases [RCV000148117] Chr8:124514090..145054634 [GRCh38]
Chr8:125526331..146280020 [GRCh37]
Chr8:125595512..146250824 [NCBI36]
Chr8:8q24.13-24.3
pathogenic
GRCh38/hg38 8q24.21-24.3(chr8:128220912-145049449)x3 copy number gain See cases [RCV000050830] Chr8:128220912..145049449 [GRCh38]
Chr8:129233158..146274835 [GRCh37]
Chr8:129302340..146245639 [NCBI36]
Chr8:8q24.21-24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:241530-145049449)x3 copy number gain See cases [RCV000051206] Chr8:241530..145049449 [GRCh38]
Chr8:191530..146274835 [GRCh37]
Chr8:181530..146245639 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q23.3-24.3(chr8:113580402-145054634)x3 copy number gain See cases [RCV000050638] Chr8:113580402..145054634 [GRCh38]
Chr8:114592631..146280020 [GRCh37]
Chr8:114661807..146250824 [NCBI36]
Chr8:8q23.3-24.3
pathogenic
GRCh38/hg38 8q22.1-24.3(chr8:95606052-145054775)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053677]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053677]|See cases [RCV000053677] Chr8:95606052..145054775 [GRCh38]
Chr8:96618280..146280161 [GRCh37]
Chr8:96687456..146250965 [NCBI36]
Chr8:8q22.1-24.3
pathogenic
GRCh38/hg38 8q24.13-24.3(chr8:124514090-145054634)x3 copy number gain See cases [RCV000053678] Chr8:124514090..145054634 [GRCh38]
Chr8:125526331..146280020 [GRCh37]
Chr8:125595512..146250824 [NCBI36]
Chr8:8q24.13-24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:241530-145054634)x3 copy number gain See cases [RCV000053602] Chr8:241530..145054634 [GRCh38]
Chr8:191530..146280020 [GRCh37]
Chr8:181530..146250824 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:244417-145054775)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053604]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053604]|See cases [RCV000053604] Chr8:244417..145054775 [GRCh38]
Chr8:194417..146280161 [GRCh37]
Chr8:184417..146250965 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q24.21-24.23(chr8:126626164-137169427)x1 copy number loss See cases [RCV000054306] Chr8:126626164..137169427 [GRCh38]
Chr8:127638409..138181670 [GRCh37]
Chr8:127707591..138250852 [NCBI36]
Chr8:8q24.21-24.23
pathogenic

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:31628 AgrOrtholog
COSMIC MIR30D COSMIC
Ensembl Genes ENSG00000199153 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000362283 ENTREZGENE
GTEx ENSG00000199153 GTEx
HGNC ID HGNC:31628 ENTREZGENE
Human Proteome Map MIR30D Human Proteome Map
miRBase MI0000255 ENTREZGENE
NCBI Gene 407033 ENTREZGENE
OMIM 619019 OMIM
PharmGKB PA164722645 PharmGKB
RNAcentral URS000005CF5F RNACentral
  URS000036BDAF RNACentral
  URS00004B2A47 RNACentral