MIR342 (microRNA 342) - Rat Genome Database

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Gene: MIR342 (microRNA 342) Homo sapiens
Analyze
Symbol: MIR342
Name: microRNA 342
RGD ID: 1348172
HGNC Page HGNC
Description: Predicted to act upstream of or within several processes, including cellular response to leukemia inhibitory factor; cellular response to lipid; and long-term synaptic potentiation. Predicted to be part of RISC complex.
Type: ncrna
RefSeq Status: PROVISIONAL
Also known as: hsa-mir-342; MIRN342
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 Ensembl14100,109,655 - 100,109,753 (+)EnsemblGRCh38hg38GRCh38
GRCh3814100,109,655 - 100,109,753 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh3714100,575,992 - 100,576,090 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361499,645,744 - 99,645,842 (+)NCBINCBI36hg18NCBI36
Cytogenetic Map14q32.2NCBI
HuRef1480,758,182 - 80,758,280 (+)NCBIHuRef
CHM1_114100,513,730 - 100,513,828 (+)NCBICHM1_1
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

Cellular Component
RISC complex  (ISO)

References

References - curated
1. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:14691248   PMID:15634332   PMID:16381832   PMID:17604727   PMID:17616659   PMID:18230126   PMID:19954774   PMID:20448109   PMID:21172025   PMID:21565830   PMID:22197249   PMID:22631664  
PMID:23951060   PMID:24475217   PMID:24768587   PMID:25066298   PMID:25580008   PMID:25663460   PMID:25908172   PMID:26270249   PMID:26483346   PMID:26646451   PMID:26646931   PMID:26857067  
PMID:26919240   PMID:27162244   PMID:27245778   PMID:27302063   PMID:27470555   PMID:27716361   PMID:28112756   PMID:28276315   PMID:28537676   PMID:28677773   PMID:28765042   PMID:29107102  
PMID:29242101   PMID:29398686   PMID:29464002   PMID:29592898   PMID:29852165   PMID:30106159   PMID:30115973   PMID:30381822   PMID:30443961   PMID:30520388   PMID:30638935   PMID:30678643  
PMID:30681251   PMID:30770954   PMID:30879399   PMID:31006667   PMID:31074015   PMID:31115523   PMID:31257526   PMID:31398664   PMID:31496296   PMID:31517731   PMID:31546665   PMID:31601147  
PMID:31746345   PMID:31751869   PMID:31926946   PMID:32120026   PMID:32275162   PMID:32335050   PMID:32390359   PMID:32397872   PMID:32493835   PMID:32534305   PMID:32583748   PMID:32841458  
PMID:33003647   PMID:33076962   PMID:34070455   PMID:34288348  


Genomics

Comparative Map Data
MIR342
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl14100,109,655 - 100,109,753 (+)EnsemblGRCh38hg38GRCh38
GRCh3814100,109,655 - 100,109,753 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh3714100,575,992 - 100,576,090 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361499,645,744 - 99,645,842 (+)NCBINCBI36hg18NCBI36
Cytogenetic Map14q32.2NCBI
HuRef1480,758,182 - 80,758,280 (+)NCBIHuRef
CHM1_114100,513,730 - 100,513,828 (+)NCBICHM1_1
Mir342
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3912108,624,879 - 108,624,977 (+)NCBIGRCm39mm39
GRCm39 Ensembl12108,624,879 - 108,624,977 (+)Ensembl
GRCm3812108,658,620 - 108,658,718 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl12108,658,620 - 108,658,718 (+)EnsemblGRCm38mm10GRCm38
MGSCv3712109,896,830 - 109,896,928 (+)NCBIGRCm37mm9NCBIm37
Celera12109,894,801 - 109,894,899 (+)NCBICelera
Cytogenetic Map12F1NCBI
Mir342
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.26127,565,269 - 127,565,367 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl6127,565,269 - 127,565,367 (+)Ensembl
Rnor_6.06132,561,169 - 132,561,267 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6132,561,169 - 132,561,267 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06141,731,245 - 141,731,343 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera6125,120,277 - 125,120,375 (+)NCBICelera
Cytogenetic Map6q32NCBI
MIR342
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1868,424,656 - 68,424,718 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha867,945,921 - 67,945,983 (+)NCBI
ROS_Cfam_1.0868,710,010 - 68,710,072 (+)NCBI
UMICH_Zoey_3.1868,372,074 - 68,372,136 (+)NCBI
UNSW_CanFamBas_1.0868,437,401 - 68,437,463 (+)NCBI
UU_Cfam_GSD_1.0868,835,077 - 68,835,139 (+)NCBI
MIR342
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl7121,021,761 - 121,021,840 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.17121,021,761 - 121,021,840 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
UCP3hsa-miR-342-5pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248
GEMIN4hsa-miR-342-3pMirtarbaseexternal_infoLuciferase reporter assay//Northern blot//qRT-PCRFunctional MTI21172025
DNMT1hsa-miR-342-3pMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blotFunctional MTI21565830
TMEM98hsa-miR-342-3pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248
DNMT1hsa-miR-342-3pMirecordsexternal_info{changed}NA21565830
DNMT1hsa-miR-342-3pOncomiRDBexternal_infoNANA21565830

Predicted Targets
Summary Value
Count of predictions:63272
Count of gene targets:21073
Count of transcripts:51727
Interacting mature miRNAs:hsa-miR-342-3p, hsa-miR-342-5p
Prediction methods:Microtar, Miranda, Pita, Pita,Targetscan, 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 sensory system adipose tissue appendage entire extraembryonic component
High
Medium 2 3 133 3 1
Low 28 25 103 77 471 75 121 23 65 80 98 114 7 7 60 4
Below cutoff 50 42 38 18 55 13 176 42 58 30 41 45 7 8 100

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_029888 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AL133523 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000362212
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl14100,109,655 - 100,109,753 (+)Ensembl
RefSeq Acc Id: NR_029888
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh3814100,109,655 - 100,109,753 (+)NCBI
GRCh3714100,575,992 - 100,576,090 (+)RGD
HuRef1480,758,182 - 80,758,280 (+)ENTREZGENE
CHM1_114100,513,730 - 100,513,828 (+)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 14q32.2-32.33(chr14:99831655-106855263)x1 copy number loss See cases [RCV000133831] Chr14:99831655..106855263 [GRCh38]
Chr14:100297992..107263478 [GRCh37]
Chr14:99367745..106334523 [NCBI36]
Chr14:14q32.2-32.33
pathogenic
GRCh38/hg38 14q24.3-32.33(chr14:73655772-106879298)x3 copy number gain See cases [RCV000134000] Chr14:73655772..106879298 [GRCh38]
Chr14:74122475..107287505 [GRCh37]
Chr14:73192228..106358550 [NCBI36]
Chr14:14q24.3-32.33
pathogenic
GRCh38/hg38 14q32.2-32.33(chr14:97638520-106855263)x3 copy number gain See cases [RCV000135400] Chr14:97638520..106855263 [GRCh38]
Chr14:98104857..107263478 [GRCh37]
Chr14:97174610..106334523 [NCBI36]
Chr14:14q32.2-32.33
pathogenic
GRCh38/hg38 14q32.2-32.33(chr14:99448012-106850609)x3 copy number gain See cases [RCV000135875] Chr14:99448012..106850609 [GRCh38]
Chr14:99914349..107258824 [GRCh37]
Chr14:98984102..106329869 [NCBI36]
Chr14:14q32.2-32.33
pathogenic
GRCh38/hg38 14q11.2-32.33(chr14:20151149-106855263)x3 copy number gain See cases [RCV000135543] Chr14:20151149..106855263 [GRCh38]
Chr14:20619308..107263478 [GRCh37]
Chr14:19689148..106334523 [NCBI36]
Chr14:14q11.2-32.33
pathogenic
GRCh38/hg38 14q32.12-32.33(chr14:92540983-104863658)x3 copy number gain See cases [RCV000135896] Chr14:92540983..104863658 [GRCh38]
Chr14:93007328..105329995 [GRCh37]
Chr14:92077081..104401040 [NCBI36]
Chr14:14q32.12-32.33
pathogenic
GRCh38/hg38 14q32.13-32.33(chr14:95524407-106879501)x1 copy number loss See cases [RCV000136032] Chr14:95524407..106879501 [GRCh38]
Chr14:95990744..107287708 [GRCh37]
Chr14:95060497..106358753 [NCBI36]
Chr14:14q32.13-32.33
pathogenic
GRCh38/hg38 14q24.3-32.33(chr14:77222795-106879298)x3 copy number gain See cases [RCV000138230] Chr14:77222795..106879298 [GRCh38]
Chr14:77689138..107287505 [GRCh37]
Chr14:76758891..106358550 [NCBI36]
Chr14:14q24.3-32.33
pathogenic
GRCh38/hg38 14q32.2-32.31(chr14:99794337-100944567)x1 copy number loss See cases [RCV000141596] Chr14:99794337..100944567 [GRCh38]
Chr14:100260674..101410904 [GRCh37]
Chr14:99330427..100480657 [NCBI36]
Chr14:14q32.2-32.31
pathogenic
GRCh38/hg38 14q32.2-32.31(chr14:99930669-101022599)x1 copy number loss See cases [RCV000142774] Chr14:99930669..101022599 [GRCh38]
Chr14:100397006..101488936 [GRCh37]
Chr14:99466759..100558689 [NCBI36]
Chr14:14q32.2-32.31
pathogenic
GRCh38/hg38 14q11.2-32.33(chr14:20043514-106877229)x3 copy number gain See cases [RCV000143373] Chr14:20043514..106877229 [GRCh38]
Chr14:20511673..107285437 [GRCh37]
Chr14:19581513..106356482 [NCBI36]
Chr14:14q11.2-32.33
pathogenic
GRCh38/hg38 14q32.2(chr14:96920270-100178956)x1 copy number loss See cases [RCV000051552] Chr14:96920270..100178956 [GRCh38]
Chr14:97386607..100645293 [GRCh37]
Chr14:96456360..99715046 [NCBI36]
Chr14:14q32.2
pathogenic
GRCh38/hg38 14q32.2-32.33(chr14:97938637-106855263)x1 copy number loss See cases [RCV000050696] Chr14:97938637..106855263 [GRCh38]
Chr14:98404974..107263478 [GRCh37]
Chr14:97474727..106334523 [NCBI36]
Chr14:14q32.2-32.33
pathogenic
GRCh38/hg38 14q31.2-32.33(chr14:83912345-106855405)x3 copy number gain See cases [RCV000052294] Chr14:83912345..106855405 [GRCh38]
Chr14:84378689..107263620 [GRCh37]
Chr14:83448442..106334665 [NCBI36]
Chr14:14q31.2-32.33
pathogenic
GRCh38/hg38 14q31.3-32.33(chr14:86094030-106832642)x3 copy number gain See cases [RCV000052295] Chr14:86094030..106832642 [GRCh38]
Chr14:86560374..107240869 [GRCh37]
Chr14:85630127..106311914 [NCBI36]
Chr14:14q31.3-32.33
pathogenic
GRCh38/hg38 14q32.2(chr14:100031805-100808500)x1 copy number loss See cases [RCV000051949] Chr14:100031805..100808500 [GRCh38]
Chr14:100498142..101274837 [GRCh37]
Chr14:99567895..100344590 [NCBI36]
Chr14:14q32.2
uncertain significance
GRCh38/hg38 14q32.12-32.33(chr14:91455861-106832642)x3 copy number gain See cases [RCV000052296] Chr14:91455861..106832642 [GRCh38]
Chr14:91922205..107240869 [GRCh37]
Chr14:90991958..106311914 [NCBI36]
Chr14:14q32.12-32.33
pathogenic
GRCh38/hg38 14q32.13-32.33(chr14:94628219-106451054)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052298]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052298]|See cases [RCV000052298] Chr14:94628219..106451054 [GRCh38]
Chr14:95094556..106906960 [GRCh37]
Chr14:94164309..105978005 [NCBI36]
Chr14:14q32.13-32.33
pathogenic
GRCh38/hg38 14q32.2(chr14:97210132-100471765)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052090]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052090]|See cases [RCV000052090] Chr14:97210132..100471765 [GRCh38]
Chr14:97676469..100938102 [GRCh37]
Chr14:96746222..100007855 [NCBI36]
Chr14:14q32.2
uncertain significance

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:31778 AgrOrtholog
COSMIC MIR342 COSMIC
Ensembl Genes ENSG00000199082 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000362212 ENTREZGENE
GTEx ENSG00000199082 GTEx
HGNC ID HGNC:31778 ENTREZGENE
Human Proteome Map MIR342 Human Proteome Map
miRBase MI0000805 ENTREZGENE
NCBI Gene 442909 ENTREZGENE
PharmGKB PA164722672 PharmGKB
RNAcentral URS0000148B91 RNACentral
  URS00005A8080 RNACentral
  URS000071B780 RNACentral