MIR216A (microRNA 216a) - Rat Genome Database

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Gene: MIR216A (microRNA 216a) Homo sapiens
Analyze
Symbol: MIR216A
Name: microRNA 216a
RGD ID: 1353818
HGNC Page HGNC
Description: Predicted to act upstream of or within cellular response to leukemia inhibitory factor.
Type: ncrna
RefSeq Status: PROVISIONAL
Also known as: mir-216; mir-216a; MIR216; MIRN216; MIRN216A; miRNA216
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 Ensembl255,988,950 - 55,989,059 (-)EnsemblGRCh38hg38GRCh38
GRCh38255,988,950 - 55,989,059 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37256,216,085 - 56,216,194 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36256,069,588 - 56,069,697 (-)NCBINCBI36hg18NCBI36
Celera256,056,494 - 56,056,603 (-)NCBI
Cytogenetic Map2p16.1NCBI
HuRef255,951,101 - 55,951,210 (-)NCBIHuRef
CHM1_1256,146,017 - 56,146,126 (-)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
pancreatitis  (EXP)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

References

References - curated
1. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12624257   PMID:16381832   PMID:17604727   PMID:20167074   PMID:21037258   PMID:22282338   PMID:22392644   PMID:22960330   PMID:23174591   PMID:23471579   PMID:24481443   PMID:24895996  
PMID:24958806   PMID:25220761   PMID:25955794   PMID:26134156   PMID:26149212   PMID:26772887   PMID:26989293   PMID:28034748   PMID:28183420   PMID:28213952   PMID:28256193   PMID:28356485  
PMID:28782557   PMID:28786533   PMID:28835317   PMID:29022909   PMID:29126969   PMID:29175120   PMID:29367594   PMID:29512862   PMID:29521586   PMID:29651883   PMID:29763606   PMID:29787989  
PMID:29884766   PMID:29940270   PMID:30061175   PMID:30299194   PMID:30430564   PMID:30462844   PMID:30502088   PMID:30536330   PMID:30556161   PMID:30840282   PMID:30864744   PMID:30876979  
PMID:30910842   PMID:30964173   PMID:31029709   PMID:31297133   PMID:31358689   PMID:31389597   PMID:31805275   PMID:31918278   PMID:32230799   PMID:32335083   PMID:32401366   PMID:32619135  
PMID:32711584   PMID:32901882   PMID:32916503   PMID:32972441   PMID:33023331   PMID:33282009   PMID:33302540   PMID:33335254   PMID:33544468  


Genomics

Comparative Map Data
MIR216A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl255,988,950 - 55,989,059 (-)EnsemblGRCh38hg38GRCh38
GRCh38255,988,950 - 55,989,059 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37256,216,085 - 56,216,194 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36256,069,588 - 56,069,697 (-)NCBINCBI36hg18NCBI36
Celera256,056,494 - 56,056,603 (-)NCBI
Cytogenetic Map2p16.1NCBI
HuRef255,951,101 - 55,951,210 (-)NCBIHuRef
CHM1_1256,146,017 - 56,146,126 (-)NCBICHM1_1
Mir216a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391128,707,012 - 28,707,083 (+)NCBIGRCm39mm39
GRCm39 Ensembl1128,707,012 - 28,707,083 (+)Ensembl
GRCm381128,757,012 - 28,757,083 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1128,757,012 - 28,757,083 (+)EnsemblGRCm38mm10GRCm38
MGSCv371128,657,012 - 28,657,083 (+)NCBIGRCm37mm9NCBIm37
Celera1131,128,544 - 31,128,615 (+)NCBICelera
Cytogenetic Map11A3.3NCBI
Mir216a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.214102,524,105 - 102,524,210 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl14102,524,105 - 102,524,210 (+)Ensembl
Rnor_6.014113,112,129 - 113,112,234 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl14113,112,129 - 113,112,234 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.014112,802,262 - 112,802,367 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera14101,424,234 - 101,424,339 (+)NCBICelera
Cytogenetic Map14q22NCBI
MIR216A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11056,761,430 - 56,761,534 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1056,761,430 - 56,761,534 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1056,717,816 - 56,717,920 (-)NCBI
ROS_Cfam_1.01057,766,339 - 57,766,443 (-)NCBI
UMICH_Zoey_3.11057,465,981 - 57,466,085 (-)NCBI
UNSW_CanFamBas_1.01057,745,555 - 57,745,659 (-)NCBI
UU_Cfam_GSD_1.01058,037,160 - 58,037,264 (-)NCBI
MIR216-1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl385,334,523 - 85,334,627 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1385,334,523 - 85,334,627 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2390,058,975 - 90,059,079 (+)NCBISscrofa10.2Sscrofa10.2susScr3

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
PTENhsa-miR-216a-5pMirtarbaseexternal_infoLuciferase reporter assay//Western blotFunctional MTI20216554
PTENhsa-miR-216a-5pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI23471579
SIRT1hsa-miR-216a-5pMirtarbaseexternal_infoLuciferase reporter assay//Western blotNon-Functional MTI19786632
CDC42hsa-miR-216a-5pMirtarbaseexternal_infoImmunohistochemistry//Luciferase reporter assay//WFunctional MTI21149267
PTENhsa-miR-216a-5pOncomiRDBexternal_infoNANA23471579
CADM1hsa-miR-216a-5pOncomiRDBexternal_infoNANA22392644

Predicted Targets
Summary Value
Count of predictions:36996
Count of gene targets:12139
Count of transcripts:25024
Interacting mature miRNAs:hsa-miR-216a-3p, hsa-miR-216a-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 adipose tissue appendage
High
Medium 2
Low 6 3 1 1 5 1 2 1 2 1 10 21 1 1
Below cutoff 15 8 4 2 3 2 7 8 12 4 14 4

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000385063
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl255,988,950 - 55,989,059 (-)Ensembl
RefSeq Acc Id: NR_029629
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38255,988,950 - 55,989,059 (-)NCBI
GRCh37256,216,085 - 56,216,194 (-)RGD
Celera256,056,494 - 56,056,603 (-)RGD
HuRef255,951,101 - 55,951,210 (-)RGD
CHM1_1256,146,017 - 56,146,126 (-)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 2p16.1(chr2:55426587-56072649)x3 copy number gain See cases [RCV000052659] Chr2:55426587..56072649 [GRCh38]
Chr2:55653723..56299784 [GRCh37]
Chr2:55507227..56153288 [NCBI36]
Chr2:2p16.1
uncertain significance
GRCh38/hg38 2p22.1-16.1(chr2:40738282-57863821)x3 copy number gain See cases [RCV000052943] Chr2:40738282..57863821 [GRCh38]
Chr2:40965422..58090956 [GRCh37]
Chr2:40818926..57944460 [NCBI36]
Chr2:2p22.1-16.1
pathogenic
GRCh38/hg38 2p16.1(chr2:55570578-60519844)x1 copy number loss See cases [RCV000137092] Chr2:55570578..60519844 [GRCh38]
Chr2:55797714..60746979 [GRCh37]
Chr2:55651218..60600483 [NCBI36]
Chr2:2p16.1
pathogenic|uncertain significance
GRCh38/hg38 2p16.3-11.2(chr2:47620388-86702722)x3 copy number gain See cases [RCV000137586] Chr2:47620388..86702722 [GRCh38]
Chr2:47847527..86929845 [GRCh37]
Chr2:47701031..86783356 [NCBI36]
Chr2:2p16.3-11.2
uncertain significance
GRCh38/hg38 2p25.1-11.2(chr2:7495123-87705899)x3 copy number gain See cases [RCV000141494] Chr2:7495123..87705899 [GRCh38]
Chr2:7635254..88005418 [GRCh37]
Chr2:7552705..87786533 [NCBI36]
Chr2:2p25.1-11.2
benign
GRCh37/hg19 2p25.3-q37.3(chr2:14238-243048760)x3 copy number gain not provided [RCV000752802] Chr2:14238..243048760 [GRCh37]
Chr2:2p25.3-q37.3
pathogenic
GRCh37/hg19 2p23.3-16.1(chr2:27861707-60790985)x3 copy number gain See cases [RCV000454271] Chr2:27861707..60790985 [GRCh37]
Chr2:2p23.3-16.1
pathogenic
GRCh37/hg19 2p16.2-16.1(chr2:54234790-57365499)x3 copy number gain See cases [RCV000446524] Chr2:54234790..57365499 [GRCh37]
Chr2:2p16.2-16.1
uncertain significance
GRCh37/hg19 2p25.3-q37.3(chr2:12771-242783384) copy number gain See cases [RCV000512056] Chr2:12771..242783384 [GRCh37]
Chr2:2p25.3-q37.3
pathogenic
GRCh37/hg19 2p16.1(chr2:55588867-56927117)x1 copy number loss See cases [RCV000510380] Chr2:55588867..56927117 [GRCh37]
Chr2:2p16.1
uncertain significance
GRCh37/hg19 2p25.3-q37.3(chr2:12771-242783384)x3 copy number gain See cases [RCV000511212] Chr2:12771..242783384 [GRCh37]
Chr2:2p25.3-q37.3
pathogenic
Single allele inversion not provided [RCV000714264] Chr2:40608411..146900718 [GRCh37]
Chr2:2p22.1-q22.3
likely pathogenic
GRCh37/hg19 2p22.3-16.1(chr2:34792916-56676541)x3 copy number gain not provided [RCV000682169] Chr2:34792916..56676541 [GRCh37]
Chr2:2p22.3-16.1
pathogenic
GRCh37/hg19 2p25.3-q37.3(chr2:15672-243101834)x3 copy number gain not provided [RCV000752804] Chr2:15672..243101834 [GRCh37]
Chr2:2p25.3-q37.3
pathogenic
GRCh37/hg19 2p16.1(chr2:56170392-56636529)x3 copy number gain not provided [RCV000740462] Chr2:56170392..56636529 [GRCh37]
Chr2:2p16.1
benign
GRCh37/hg19 2p16.1(chr2:56175876-60780215)x1 copy number loss not provided [RCV000849729] Chr2:56175876..60780215 [GRCh37]
Chr2:2p16.1
pathogenic
GRCh37/hg19 2p16.1(chr2:56141953-56942624)x3 copy number gain not provided [RCV001249407] Chr2:56141953..56942624 [GRCh37]
Chr2:2p16.1
not provided

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:31593 AgrOrtholog
COSMIC MIR216A COSMIC
Ensembl Genes ENSG00000207798 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000385063 ENTREZGENE
GTEx ENSG00000207798 GTEx
HGNC ID HGNC:31593 ENTREZGENE
Human Proteome Map MIR216A Human Proteome Map
miRBase MI0000292 ENTREZGENE
NCBI Gene 406998 ENTREZGENE
OMIM 610944 OMIM
PharmGKB PA164722598 PharmGKB
RNAcentral URS000013ABA3 RNACentral
  URS0000318E24 RNACentral
  URS000075D097 RNACentral