MIR10A (microRNA 10a) - Rat Genome Database

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Gene: MIR10A (microRNA 10a) Homo sapiens
Analyze
Symbol: MIR10A
Name: microRNA 10a
RGD ID: 1348739
HGNC Page HGNC
Description: Predicted to act upstream of or within several processes, including cellular response to alcohol; cellular response to lipopolysaccharide; and gene silencing by miRNA.
Type: ncrna
RefSeq Status: PROVISIONAL
Also known as: hsa-mir-10a; mir-10a; MIRN10A; miRNA10A
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 Ensembl1748,579,838 - 48,579,947 (-)EnsemblGRCh38hg38GRCh38
GRCh381748,579,838 - 48,579,947 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371746,657,200 - 46,657,309 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361744,012,198 - 44,012,307 (-)NCBINCBI36hg18NCBI36
Celera1743,111,353 - 43,111,462 (-)NCBI
Cytogenetic Map17q21.32NCBI
HuRef1742,026,007 - 42,026,116 (-)NCBIHuRef
CHM1_11746,723,164 - 46,723,273 (-)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:12624257   PMID:16381832   PMID:16549775   PMID:17604727   PMID:17616659   PMID:18773208   PMID:19074828   PMID:19461655   PMID:19462682   PMID:19747919   PMID:20588024   PMID:21037258  
PMID:21118818   PMID:21212796   PMID:21784052   PMID:22348345   PMID:22407312   PMID:22634495   PMID:22955733   PMID:22976466   PMID:22983574   PMID:22996586   PMID:23272089   PMID:23321646  
PMID:23685355   PMID:23696417   PMID:23867826   PMID:23968733   PMID:24100613   PMID:24103260   PMID:24412053   PMID:24498243   PMID:24522205   PMID:24714979   PMID:25018014   PMID:25068583  
PMID:25266482   PMID:25421511   PMID:25554417   PMID:25563880   PMID:25586740   PMID:25673044   PMID:25683004   PMID:25934412   PMID:26317552   PMID:26395143   PMID:26554762   PMID:26628598  
PMID:26646931   PMID:26824181   PMID:27002617   PMID:27313333   PMID:27815824   PMID:27834869   PMID:28112253   PMID:28319071   PMID:28383561   PMID:28746769   PMID:28782180   PMID:29109423  
PMID:29254789   PMID:29397407   PMID:29545315   PMID:29615098   PMID:29703144   PMID:29739060   PMID:29739970   PMID:29907859   PMID:30120311   PMID:30259272   PMID:30302800   PMID:30348959  
PMID:30419846   PMID:30556849   PMID:30680848   PMID:30706734   PMID:30841471   PMID:30927504   PMID:31108493   PMID:31799671   PMID:31829310   PMID:32176569   PMID:32186774   PMID:32319862  
PMID:32377690   PMID:32542845   PMID:32583631   PMID:32611384   PMID:32683841   PMID:32784057   PMID:32853927   PMID:32997362   PMID:33262524   PMID:33668046   PMID:33721459   PMID:33809988  


Genomics

Comparative Map Data
MIR10A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1748,579,838 - 48,579,947 (-)EnsemblGRCh38hg38GRCh38
GRCh381748,579,838 - 48,579,947 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371746,657,200 - 46,657,309 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361744,012,198 - 44,012,307 (-)NCBINCBI36hg18NCBI36
Celera1743,111,353 - 43,111,462 (-)NCBI
Cytogenetic Map17q21.32NCBI
HuRef1742,026,007 - 42,026,116 (-)NCBIHuRef
CHM1_11746,723,164 - 46,723,273 (-)NCBICHM1_1
Mir10a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391196,207,991 - 96,208,100 (+)NCBIGRCm39mm39
GRCm39 Ensembl1196,207,991 - 96,208,100 (+)Ensembl
GRCm381196,317,165 - 96,317,274 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1196,317,165 - 96,317,274 (+)EnsemblGRCm38mm10GRCm38
MGSCv371196,178,479 - 96,178,588 (+)NCBIGRCm37mm9NCBIm37
Celera11105,968,030 - 105,968,139 (+)NCBICelera
Cytogenetic Map11DNCBI
Mir10a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21081,283,171 - 81,283,280 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1081,283,171 - 81,283,280 (+)Ensembl
Rnor_6.01084,165,950 - 84,166,059 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1084,165,950 - 84,166,059 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01083,968,682 - 83,968,791 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1080,049,333 - 80,049,442 (+)NCBICelera
Cytogenetic Map10q26NCBI
MIR10A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1924,842,171 - 24,842,233 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl924,842,145 - 24,842,248 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha924,306,058 - 24,306,120 (-)NCBI
ROS_Cfam_1.0925,636,582 - 25,636,644 (-)NCBI
UMICH_Zoey_3.1924,404,742 - 24,404,804 (-)NCBI
UNSW_CanFamBas_1.0924,665,341 - 24,665,403 (-)NCBI
UU_Cfam_GSD_1.0924,793,560 - 24,793,622 (-)NCBI
MIR10A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1224,833,627 - 24,833,730 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11224,833,644 - 24,833,723 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21224,791,267 - 24,791,346 (-)NCBISscrofa10.2Sscrofa10.2susScr3

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
VPS13Dhsa-miR-10a-3pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248
BUB1hsa-miR-10a-3pOncomiRDBexternal_infoNANA23125021
HOXA1hsa-miR-10a-5pMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blot//Functional MTI16549775
TRA2Bhsa-miR-10a-5pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI21118818
USF2hsa-miR-10a-5pMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blotFunctional MTI19074828
NCOR2hsa-miR-10a-5pMirtarbaseexternal_infoqRT-PCR//Western blotFunctional MTI21212796
MAP3K7hsa-miR-10a-5pMirtarbaseexternal_infoLuciferase reporter assay//Microarray//qRT-PCR//WeFunctional MTI20624982
EPHA4hsa-miR-10a-5pMirtarbaseexternal_infoGFP reporter assay//Immunohistochemistry//qRT-PCR/Functional MTI22996586
EPHA4hsa-miR-10a-5pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248
CHL1hsa-miR-10a-5pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI22634495
GPR63hsa-miR-10a-5pMirtarbaseexternal_infoSequencingFunctional MTI (Weak)20371350
HOXA1hsa-miR-10a-5pTarbaseexternal_infoReporter GenePOSITIVE
WEE1hsa-miR-10a-5pTarbaseexternal_infoSequencingPOSITIVE
HOXA1hsa-miR-10a-5pMirecordsexternal_info{changed}NA16549775
USF2hsa-miR-10a-5pMirecordsexternal_info{changed}NA19074828
CHL1hsa-miR-10a-5pOncomiRDBexternal_infoNANA22634495
CSMD1hsa-miR-10a-5pOncomiRDBexternal_infoNANA22558405
KLF4hsa-miR-10a-5pOncomiRDBexternal_infoNANA22348345
MDM4hsa-miR-10a-5pOncomiRDBexternal_infoNANA21784052
NCOR2hsa-miR-10a-5pOncomiRDBexternal_infoNANA21212796
SRSF1hsa-miR-10a-5pOncomiRDBexternal_infoNANA21118818
USF2hsa-miR-10a-5pOncomiRDBexternal_infoNANA19074828

Predicted Targets
Summary Value
Count of predictions:28099
Count of gene targets:13117
Count of transcripts:24925
Interacting mature miRNAs:hsa-miR-10a-3p, hsa-miR-10a-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


Sequence


Reference Sequences
RefSeq Acc Id: ENST00000385043
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1748,579,838 - 48,579,947 (-)Ensembl
RefSeq Acc Id: NR_029608
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381748,579,838 - 48,579,947 (-)NCBI
GRCh371746,657,200 - 46,657,309 (-)RGD
Celera1743,111,353 - 43,111,462 (-)RGD
HuRef1742,026,007 - 42,026,116 (-)RGD
CHM1_11746,723,164 - 46,723,273 (-)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 17q21.33-24.2(chr17:36449220-68170214)x3 copy number gain See cases [RCV000050957] Chr17:36449220..68170214 [GRCh38]
Chr17:48563237..65936105 [GRCh37]
Chr17:45918236..63677950 [NCBI36]
Chr17:17q21.33-24.2
pathogenic
GRCh38/hg38 17q23.2-25.3(chr17:36449220-83086677)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052483]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052483]|See cases [RCV000052483] Chr17:36449220..83086677 [GRCh38]
Chr17:58617905..81044553 [GRCh37]
Chr17:55972687..78637842 [NCBI36]
Chr17:17q23.2-25.3
pathogenic
GRCh38/hg38 17q21.31-21.33(chr17:44955325-49381173)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052480]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052480]|See cases [RCV000052480] Chr17:44955325..49381173 [GRCh38]
Chr17:43032693..47458535 [GRCh37]
Chr17:40388219..44813534 [NCBI36]
Chr17:17q21.31-21.33
pathogenic
GRCh38/hg38 17q21.32-21.33(chr17:48520885-49511208)x1 copy number loss See cases [RCV000053431] Chr17:48520885..49511208 [GRCh38]
Chr17:46598247..47588570 [GRCh37]
Chr17:43953246..44943569 [NCBI36]
Chr17:17q21.32-21.33
pathogenic
GRCh38/hg38 17q23.1-25.1(chr17:36449220-75053130)x3 copy number gain See cases [RCV000137437] Chr17:36449220..75053130 [GRCh38]
Chr17:57595736..73049225 [GRCh37]
Chr17:54950518..70560820 [NCBI36]
Chr17:17q23.1-25.1
pathogenic
GRCh38/hg38 17q21.32-21.33(chr17:47986886-49329397)x1 copy number loss See cases [RCV000142900] Chr17:47986886..49329397 [GRCh38]
Chr17:46064252..47406759 [GRCh37]
Chr17:43419251..44761758 [NCBI36]
Chr17:17q21.32-21.33
pathogenic
GRCh38/hg38 17q21.32-21.33(chr17:48450628-49552921)x3 copy number gain See cases [RCV000143451] Chr17:48450628..49552921 [GRCh38]
Chr17:46527990..47630283 [GRCh37]
Chr17:43882989..44985282 [NCBI36]
Chr17:17q21.32-21.33
uncertain significance
GRCh37/hg19 17q21.31-25.3(chr17:42580684-81085615)x3 copy number gain See cases [RCV000447823] Chr17:42580684..81085615 [GRCh37]
Chr17:17q21.31-25.3
pathogenic
GRCh37/hg19 17p13.3-q25.3(chr17:526-81041938) copy number gain See cases [RCV000511439] Chr17:526..81041938 [GRCh37]
Chr17:17p13.3-q25.3
pathogenic
GRCh37/hg19 17p13.3-q25.3(chr17:526-81041938)x3 copy number gain See cases [RCV000512441] Chr17:526..81041938 [GRCh37]
Chr17:17p13.3-q25.3
pathogenic
GRCh37/hg19 17q21.32-22(chr17:46481089-51396368)x1 copy number loss not provided [RCV000513510] Chr17:46481089..51396368 [GRCh37]
Chr17:17q21.32-22
likely pathogenic
GRCh37/hg19 17p13.3-q25.3(chr17:12344-81057996)x3 copy number gain not provided [RCV000739325] Chr17:12344..81057996 [GRCh37]
Chr17:17p13.3-q25.3
pathogenic
GRCh37/hg19 17p13.3-q25.3(chr17:8547-81060040)x3 copy number gain not provided [RCV000739324] Chr17:8547..81060040 [GRCh37]
Chr17:17p13.3-q25.3
pathogenic
GRCh37/hg19 17p13.3-q25.3(chr17:7214-81058310)x3 copy number gain not provided [RCV000739320] Chr17:7214..81058310 [GRCh37]
Chr17:17p13.3-q25.3
pathogenic

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:31497 AgrOrtholog
COSMIC MIR10A COSMIC
Ensembl Genes ENSG00000284038 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000385043 ENTREZGENE
GTEx ENSG00000284038 GTEx
HGNC ID HGNC:31497 ENTREZGENE
Human Proteome Map MIR10A Human Proteome Map
miRBase MI0000266 ENTREZGENE
NCBI Gene 406902 ENTREZGENE
OMIM 610173 OMIM
PharmGKB PA164722345 PharmGKB
RNAcentral URS000016D2D4 RNACentral
  URS00002F4762 RNACentral
  URS000048795E RNACentral