MIR9-3 (microRNA 9-3) - Rat Genome Database

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Gene: MIR9-3 (microRNA 9-3) Homo sapiens
Analyze
Symbol: MIR9-3
Name: microRNA 9-3
RGD ID: 1345298
HGNC Page HGNC:31646
Description: Enables mRNA 3'-UTR binding activity; mRNA base-pairing post-transcriptional repressor activity; and single-stranded RNA binding activity. Involved in several processes, including miRNA-mediated post-transcriptional gene silencing; negative regulation of cholesterol efflux; and negative regulation of signal transduction. Acts upstream of or within negative regulation of gene expression. Located in cytoplasm and nucleus. Implicated in lung squamous cell carcinoma.
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: hsa-mir-9-3; mir-9-3; MIRN9-3; miRNA9-3
RGD Orthologs
Mouse
Rat
Dog
Pig
Alliance Orthologs
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381589,368,017 - 89,368,106 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1589,368,017 - 89,368,106 (+)Ensemblhg38GRCh38
GRCh371589,911,248 - 89,911,337 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361587,712,251 - 87,712,340 (+)NCBIBuild 36Build 36hg18NCBI36
Celera1566,313,666 - 66,313,755 (+)NCBICelera
Cytogenetic Map15q26.1NCBI
HuRef1566,024,059 - 66,024,148 (+)NCBIHuRef
CHM1_11589,752,292 - 89,752,381 (+)NCBICHM1_1
T2T-CHM13v2.01587,124,074 - 87,124,163 (+)NCBIT2T-CHM13v2.0
JBrowse:




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 hyperosmotic salinity response  (ISO)
cellular response to ethanol  (ISO)
cellular response to leukemia inhibitory factor  (ISO)
interneuron axon guidance  (ISO)
long-term synaptic potentiation  (ISO)
miRNA-mediated gene silencing by inhibition of translation  (IDA)
miRNA-mediated gene silencing by mRNA destabilization  (IDA,IMP)
miRNA-mediated post-transcriptional gene silencing  (IDA,IEA)
negative regulation of cell adhesion  (ISS)
negative regulation of cell migration  (IDA)
negative regulation of cell population proliferation  (IDA)
negative regulation of cholesterol efflux  (IMP)
negative regulation of extracellular matrix assembly  (IMP)
negative regulation of gene expression  (IDA)
negative regulation of lipid biosynthetic process  (IMP)
negative regulation of myofibroblast differentiation  (IMP)
negative regulation of non-canonical NF-kappaB signal transduction  (IDA)
negative regulation of osteoblast differentiation  (ISS)
negative regulation of osteoblast proliferation  (ISS)
negative regulation of receptor signaling pathway via JAK-STAT  (IDA)
negative regulation of transforming growth factor beta receptor signaling pathway  (IMP)
negative regulation of xenobiotic detoxification by transmembrane export across the plasma membrane  (IGI)
olfactory bulb interneuron differentiation  (ISO)
positive regulation of lymphangiogenesis  (IMP)
regulation of gene expression  (ISO)
regulation of neuron differentiation  (ISO)
regulatory ncRNA-mediated gene silencing  (IDA)

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Genome-wide miRNA expression profiling identifies miR-9-3 and miR-193a as targets for DNA methylation in non-small cell lung cancers. Heller G, etal., Clin Cancer Res. 2012 Mar 15;18(6):1619-29. doi: 10.1158/1078-0432.CCR-11-2450. Epub 2012 Jan 26.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
3. Demethylation of miR-9-3 and miR-193a genes suppresses proliferation and promotes apoptosis in non-small cell lung cancer cell lines. Wang J, etal., Cell Physiol Biochem. 2013;32(6):1707-19. doi: 10.1159/000356605. Epub 2013 Dec 13.
Additional References at PubMed
PMID:12007417   PMID:16381832   PMID:17604727   PMID:20167074   PMID:20676129   PMID:21037258   PMID:21368052   PMID:21858175   PMID:21917081   PMID:21931274   PMID:22703336   PMID:23459718  
PMID:23547834   PMID:23985560   PMID:24141785   PMID:24373626   PMID:24412053   PMID:25375090   PMID:25552204   PMID:25696812   PMID:25809226   PMID:25855800   PMID:25940709   PMID:25978320  
PMID:26125451   PMID:26152689   PMID:26337487   PMID:26459099   PMID:26813876   PMID:26840256   PMID:26898797   PMID:26983891   PMID:27003684   PMID:27345415   PMID:27535911   PMID:27543926  
PMID:27694005   PMID:27705935   PMID:27725294   PMID:28107581   PMID:28260112   PMID:28397066   PMID:28430789   PMID:28431233   PMID:28613134   PMID:28667418   PMID:28882698   PMID:29073595  
PMID:29286096   PMID:29525530   PMID:29674133   PMID:30637864   PMID:30794820   PMID:30899277   PMID:30965609   PMID:31158449   PMID:31164410   PMID:31389603   PMID:31539118   PMID:31978557  
PMID:32108454   PMID:32120025   PMID:32248435   PMID:32321579   PMID:32544883   PMID:32703504   PMID:32819588   PMID:33028108   PMID:33038536   PMID:33388023   PMID:34021445   PMID:35611601  
PMID:35971175   PMID:36281584   PMID:36333293   PMID:36410793   PMID:37479878   PMID:37498061   PMID:38243118   PMID:38310615   PMID:38375688  


Genomics

Comparative Map Data
MIR9-3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381589,368,017 - 89,368,106 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1589,368,017 - 89,368,106 (+)Ensemblhg38GRCh38
GRCh371589,911,248 - 89,911,337 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361587,712,251 - 87,712,340 (+)NCBIBuild 36Build 36hg18NCBI36
Celera1566,313,666 - 66,313,755 (+)NCBICelera
Cytogenetic Map15q26.1NCBI
HuRef1566,024,059 - 66,024,148 (+)NCBIHuRef
CHM1_11589,752,292 - 89,752,381 (+)NCBICHM1_1
T2T-CHM13v2.01587,124,074 - 87,124,163 (+)NCBIT2T-CHM13v2.0
Mir9-3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39779,155,012 - 79,155,101 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl779,155,012 - 79,155,101 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38779,505,264 - 79,505,353 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl779,505,264 - 79,505,353 (+)Ensemblmm10GRCm38
MGSCv37786,650,150 - 86,650,239 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
Celera776,909,037 - 76,909,126 (+)NCBICelera
Cytogenetic Map7D2NCBI
cM Map745.06NCBI
Mir9-3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81142,849,400 - 142,849,489 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.21133,440,049 - 133,440,138 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx1141,349,605 - 141,349,694 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01148,518,995 - 148,519,084 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01141,436,720 - 141,436,809 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01141,229,353 - 141,229,442 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01142,191,179 - 142,191,268 (+)NCBIRnor_5.0Rnor_5.0rn5
Celera1125,503,266 - 125,503,355 (+)NCBICelera
Cytogenetic Map1q31NCBI
MIR9-3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1352,410,840 - 52,410,900 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl352,410,825 - 52,410,914 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha355,045,186 - 55,045,246 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0352,827,742 - 52,827,802 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl352,827,727 - 52,827,816 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1352,350,533 - 52,350,593 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0352,560,740 - 52,560,800 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0352,900,537 - 52,900,597 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
MIR9-3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl754,948,447 - 54,948,536 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1754,948,452 - 54,948,532 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2759,924,193 - 59,924,273 (+)NCBISscrofa10.2Sscrofa10.2susScr3


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 15q25.2-26.3(chr15:84169153-101904929)x3 copy number gain See cases [RCV000052352] Chr15:84169153..101904929 [GRCh38]
Chr15:84837905..102445132 [GRCh37]
Chr15:82628909..100262655 [NCBI36]
Chr15:15q25.2-26.3		 pathogenic
GRCh38/hg38 15q24.2-26.3(chr15:75307767-101723215)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052346]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052346]|See cases [RCV000052346] Chr15:75307767..101723215 [GRCh38]
Chr15:75600108..102263418 [GRCh37]
Chr15:73387161..100080941 [NCBI36]
Chr15:15q24.2-26.3		 pathogenic
GRCh38/hg38 15q24.3-26.3(chr15:77543797-101843411)x3 copy number gain See cases [RCV000052347] Chr15:77543797..101843411 [GRCh38]
Chr15:77836139..102383614 [GRCh37]
Chr15:75623194..100201137 [NCBI36]
Chr15:15q24.3-26.3		 pathogenic
GRCh38/hg38 15q25.2-26.3(chr15:83711377-101843270)x3 copy number gain See cases [RCV000135858] Chr15:83711377..101843270 [GRCh38]
Chr15:84380129..102383473 [GRCh37]
Chr15:82171133..100200996 [NCBI36]
Chr15:15q25.2-26.3		 pathogenic
GRCh38/hg38 15q25.3-26.3(chr15:87904735-101843270)x3 copy number gain See cases [RCV000135568] Chr15:87904735..101843270 [GRCh38]
Chr15:88447966..102383473 [GRCh37]
Chr15:86248970..100200996 [NCBI36]
Chr15:15q25.3-26.3		 pathogenic
GRCh38/hg38 15q25.2-26.3(chr15:82859676-101810992)x3 copy number gain See cases [RCV000136849] Chr15:82859676..101810992 [GRCh38]
Chr15:83528428..102351195 [GRCh37]
Chr15:81325482..100168718 [NCBI36]
Chr15:15q25.2-26.3		 pathogenic
GRCh38/hg38 15q25.3-26.3(chr15:85826665-101920998)x4 copy number gain See cases [RCV000137264] Chr15:85826665..101920998 [GRCh38]
Chr15:86369896..102461201 [GRCh37]
Chr15:84170900..100278724 [NCBI36]
Chr15:15q25.3-26.3		 pathogenic
GRCh38/hg38 15q23-26.3(chr15:72154949-101920998)x3 copy number gain See cases [RCV000143019] Chr15:72154949..101920998 [GRCh38]
Chr15:72447290..102461201 [GRCh37]
Chr15:70234344..100278724 [NCBI36]
Chr15:15q23-26.3		 pathogenic
GRCh38/hg38 15q22.2-26.3(chr15:59828460-101920998)x3 copy number gain See cases [RCV000142915] Chr15:59828460..101920998 [GRCh38]
Chr15:60120659..102461201 [GRCh37]
Chr15:57907951..100278724 [NCBI36]
Chr15:15q22.2-26.3		 pathogenic
GRCh38/hg38 15q26.1-26.3(chr15:88676575-98364743)x3 copy number gain See cases [RCV000142727] Chr15:88676575..98364743 [GRCh38]
Chr15:89219806..98907972 [GRCh37]
Chr15:87020810..96725495 [NCBI36]
Chr15:15q26.1-26.3		 pathogenic
GRCh37/hg19 15q24.2-26.3(chr15:76061144-102429112)x3 copy number gain See cases [RCV000511332] Chr15:76061144..102429112 [GRCh37]
Chr15:15q24.2-26.3		 pathogenic
GRCh37/hg19 15q22.31-26.3(chr15:64637227-102509910)x3 copy number gain See cases [RCV000240602] Chr15:64637227..102509910 [GRCh37]
Chr15:15q22.31-26.3		 pathogenic
GRCh37/hg19 15q22.1-26.3(chr15:59297293-102480888)x3 copy number gain not provided [RCV000415836] Chr15:59297293..102480888 [GRCh37]
Chr15:15q22.1-26.3		 likely pathogenic
GRCh37/hg19 15q25.2-26.3(chr15:85089467-102495441)x3 copy number gain See cases [RCV000449119] Chr15:85089467..102495441 [GRCh37]
Chr15:15q25.2-26.3		 pathogenic
GRCh37/hg19 15q15.1-26.3(chr15:41745084-102354798)x4 copy number gain See cases [RCV000447123] Chr15:41745084..102354798 [GRCh37]
Chr15:15q15.1-26.3		 pathogenic
GRCh37/hg19 15q25.1-26.3(chr15:80648093-102429112)x3 copy number gain See cases [RCV000445705] Chr15:80648093..102429112 [GRCh37]
Chr15:15q25.1-26.3		 pathogenic
GRCh37/hg19 15q11.2-26.3(chr15:20733395-102511616)x4 copy number gain See cases [RCV000447765] Chr15:20733395..102511616 [GRCh37]
Chr15:15q11.2-26.3		 pathogenic
GRCh37/hg19 15q25.3-26.1(chr15:88295992-94215607)x1 copy number loss See cases [RCV000448680] Chr15:88295992..94215607 [GRCh37]
Chr15:15q25.3-26.1		 pathogenic
GRCh38/hg38 15q25.3-26.3(chr15:85397539-101888909)x3 copy number gain See cases [RCV000141899] Chr15:85397539..101888909 [GRCh38]
Chr15:85940770..102429112 [GRCh37]
Chr15:83741774..100246635 [NCBI36]
Chr15:15q25.3-26.3		 pathogenic
GRCh37/hg19 15q25.3-26.3(chr15:86148286-102511616)x3 copy number gain See cases [RCV000448044] Chr15:86148286..102511616 [GRCh37]
Chr15:15q25.3-26.3		 pathogenic
GRCh37/hg19 15q11.2-26.3(chr15:22770422-102429112)x3 copy number gain See cases [RCV000510717] Chr15:22770422..102429112 [GRCh37]
Chr15:15q11.2-26.3		 pathogenic
GRCh37/hg19 15q11.2-26.3(chr15:22770422-102429112) copy number gain See cases [RCV000512019] Chr15:22770422..102429112 [GRCh37]
Chr15:15q11.2-26.3		 pathogenic
GRCh37/hg19 15q25.3-26.3(chr15:86899001-98734014)x3 copy number gain See cases [RCV000511629] Chr15:86899001..98734014 [GRCh37]
Chr15:15q25.3-26.3		 likely pathogenic
Single allele duplication not provided [RCV000677926] Chr15:31115047..102354857 [GRCh37]
Chr15:15q13.2-26.3		 pathogenic
GRCh37/hg19 15q26.1-26.3(chr15:89743929-102429112)x3 copy number gain not provided [RCV000683718] Chr15:89743929..102429112 [GRCh37]
Chr15:15q26.1-26.3		 pathogenic
GRCh37/hg19 15q23-26.3(chr15:71329220-102270758)x3 copy number gain not provided [RCV000683703] Chr15:71329220..102270758 [GRCh37]
Chr15:15q23-26.3		 pathogenic
GRCh37/hg19 15q24.3-26.3(chr15:77479244-102429112)x3 copy number gain not provided [RCV000683710] Chr15:77479244..102429112 [GRCh37]
Chr15:15q24.3-26.3		 pathogenic
GRCh37/hg19 15q25.3-26.3(chr15:88385150-102461162)x3 copy number gain not provided [RCV000738864] Chr15:88385150..102461162 [GRCh37]
Chr15:15q25.3-26.3		 pathogenic
GRCh37/hg19 15q11.1-26.3(chr15:20016811-102493540)x3 copy number gain not provided [RCV000751155] Chr15:20016811..102493540 [GRCh37]
Chr15:15q11.1-26.3		 pathogenic
GRCh37/hg19 15q11.1-26.3(chr15:20071673-102461162)x3 copy number gain not provided [RCV000751156] Chr15:20071673..102461162 [GRCh37]
Chr15:15q11.1-26.3		 pathogenic
GRCh37/hg19 15q25.2-26.1(chr15:83883823-92165844) copy number loss not provided [RCV000767759] Chr15:83883823..92165844 [GRCh37]
Chr15:15q25.2-26.1		 pathogenic
GRCh37/hg19 15q25.3-26.3(chr15:87189245-102429112)x1 copy number loss not provided [RCV001006718] Chr15:87189245..102429112 [GRCh37]
Chr15:15q25.3-26.3		 pathogenic
GRCh37/hg19 15q25.3-26.3(chr15:86962053-102531392)x1 copy number loss See cases [RCV001263026] Chr15:86962053..102531392 [GRCh37]
Chr15:15q25.3-26.3		 pathogenic
NC_000015.9:g.(?_32964879)_(91358519_?)dup duplication Bloom syndrome [RCV001343104]|Familial colorectal cancer [RCV001325176] Chr15:32964879..91358519 [GRCh37]
Chr15:15q13.3-26.1		 uncertain significance
GRCh37/hg19 15q25.3-26.2(chr15:88465861-94411846)x1 copy number loss not provided [RCV001795547] Chr15:88465861..94411846 [GRCh37]
Chr15:15q25.3-26.2		 pathogenic
GRCh37/hg19 15q26.1(chr15:89520451-93926491)x1 copy number loss not provided [RCV001827973] Chr15:89520451..93926491 [GRCh37]
Chr15:15q26.1		 pathogenic
NC_000015.9:g.(?_89859982)_(90294462_?)dup duplication not provided [RCV001980109] Chr15:89859982..90294462 [GRCh37]
Chr15:15q26.1		 uncertain significance
NC_000015.9:g.(?_89379429)_(91565479_?)dup duplication D-2-hydroxyglutaric aciduria 2 [RCV003111027]|not provided [RCV003111026] Chr15:89379429..91565479 [GRCh37]
Chr15:15q26.1		 uncertain significance|no classifications from unflagged records
GRCh37/hg19 15q24.3-26.3(chr15:77512817-102035027)x3 copy number gain not provided [RCV002475797] Chr15:77512817..102035027 [GRCh37]
Chr15:15q24.3-26.3		 pathogenic
GRCh37/hg19 15q25.2-26.3(chr15:84228005-102264590)x3 copy number gain not provided [RCV003222840] Chr15:84228005..102264590 [GRCh37]
Chr15:15q25.2-26.3		 pathogenic
GRCh37/hg19 15q22.33-26.1(chr15:67358491-91644328)x3 copy number gain not provided [RCV003222839] Chr15:67358491..91644328 [GRCh37]
Chr15:15q22.33-26.1		 pathogenic
GRCh37/hg19 15q24.1-26.3(chr15:75165490-102520892)x3 copy number gain See cases [RCV003329502] Chr15:75165490..102520892 [GRCh37]
Chr15:15q24.1-26.3		 pathogenic
GRCh37/hg19 15q26.1(chr15:89587464-90219354)x1 copy number loss not provided [RCV003483246] Chr15:89587464..90219354 [GRCh37]
Chr15:15q26.1		 uncertain significance
NC_000015.9:g.(?_89379429)_(91312836_?)del deletion Bloom syndrome [RCV004582913]|D-2-hydroxyglutaric aciduria 2 [RCV004582914] Chr15:89379429..91312836 [GRCh37]
Chr15:15q26.1		 pathogenic|uncertain significance

Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
hemolymphoid system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
6 6 15 11 606 16 3 2 7 24 25 603 2 41 3

Sequence


Ensembl Acc Id: ENST00000385084
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1589,368,017 - 89,368,106 (+)Ensembl
RefSeq Acc Id: NR_029692
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381589,368,017 - 89,368,106 (+)NCBI
GRCh371589,911,248 - 89,911,337 (+)RGD
Celera1566,313,666 - 66,313,755 (+)RGD
HuRef1566,024,059 - 66,024,148 (+)RGD
CHM1_11589,752,292 - 89,752,381 (+)NCBI
T2T-CHM13v2.01587,124,074 - 87,124,163 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:31646 AgrOrtholog
COSMIC MIR9-3 COSMIC
Ensembl Genes ENSG00000284329 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000385084 ENTREZGENE
GTEx ENSG00000284329 GTEx
HGNC ID HGNC:31646 ENTREZGENE
Human Proteome Map MIR9-3 Human Proteome Map
miRBase MI0000468 ENTREZGENE
NCBI Gene 407051 ENTREZGENE
OMIM 611188 OMIM
PharmGKB PA164722997 PharmGKB
RNAcentral URS00003496BE RNACentral
  URS00004208C5 RNACentral
  URS00005D97FE RNACentral