MIR449A (microRNA 449a) - Rat Genome Database
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Gene: MIR449A (microRNA 449a) Homo sapiens
Analyze
Symbol: MIR449A
Name: microRNA 449a
RGD ID: 1605754
HGNC Page HGNC
Description: Predicted to be involved in several processes, including cellular response to leukemia inhibitory factor; embryonic brain development; and motile cilium assembly.
Type: ncrna
RefSeq Status: PROVISIONAL
Also known as: hsa-mir-449; mir-449a; MIRN449; MIRN449A
RGD Orthologs
Mouse
Rat
Dog
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 Ensembl555,170,532 - 55,170,622 (-)EnsemblGRCh38hg38GRCh38
GRCh38555,170,532 - 55,170,622 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37554,466,360 - 54,466,450 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36554,502,116 - 54,502,206 (-)NCBINCBI36hg18NCBI36
Celera551,419,206 - 51,419,296 (-)NCBI
Cytogenetic Map5q11.2NCBI
HuRef551,439,533 - 51,439,623 (-)NCBIHuRef
CHM1_1554,469,853 - 54,469,943 (-)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

References - curated
1. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15735639   PMID:16381832   PMID:17604727   PMID:19252524   PMID:19960022   PMID:20356416   PMID:20948989   PMID:21037258   PMID:21418558   PMID:21602795   PMID:21857154   PMID:22194996  
PMID:22266187   PMID:22769578   PMID:23226395   PMID:23298640   PMID:23614048   PMID:23734217   PMID:24120948   PMID:24248414   PMID:24429361   PMID:24810364   PMID:24993091   PMID:25119660  
PMID:25179844   PMID:25238166   PMID:25424357   PMID:25487955   PMID:25760387   PMID:25818739   PMID:25871967   PMID:26002578   PMID:26375440   PMID:26381333   PMID:26471185   PMID:26502848  
PMID:26520443   PMID:26576674   PMID:26722545   PMID:26934316   PMID:26975503   PMID:26988912   PMID:27138288   PMID:27250340   PMID:27406588   PMID:27458165   PMID:28088579   PMID:28192603  
PMID:28627667   PMID:28821833   PMID:28983596   PMID:29050069   PMID:29117539   PMID:29305863   PMID:29431182   PMID:29562957   PMID:29653747   PMID:29659560   PMID:29684857   PMID:29795112  
PMID:29803931   PMID:29845226   PMID:30015944   PMID:30021388   PMID:30108016   PMID:30278449   PMID:30389318   PMID:30551450   PMID:30663389   PMID:30679313   PMID:31016850   PMID:31159863  
PMID:31177123   PMID:31201812   PMID:31345231   PMID:31578014   PMID:31767812   PMID:31892572   PMID:31894345   PMID:32046419   PMID:32103099   PMID:32376557  


Genomics

Comparative Map Data
MIR449A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl555,170,532 - 55,170,622 (-)EnsemblGRCh38hg38GRCh38
GRCh38555,170,532 - 55,170,622 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37554,466,360 - 54,466,450 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36554,502,116 - 54,502,206 (-)NCBINCBI36hg18NCBI36
Celera551,419,206 - 51,419,296 (-)NCBI
Cytogenetic Map5q11.2NCBI
HuRef551,439,533 - 51,439,623 (-)NCBIHuRef
CHM1_1554,469,853 - 54,469,943 (-)NCBICHM1_1
Mir449a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3913113,174,068 - 113,174,158 (+)NCBIGRCm39mm39
GRCm3813113,037,534 - 113,037,624 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl13113,037,534 - 113,037,624 (+)EnsemblGRCm38mm10GRCm38
MGSCv3713113,827,742 - 113,827,832 (+)NCBIGRCm37mm9NCBIm37
Celera13117,355,551 - 117,355,641 (+)NCBICelera
Cytogenetic Map13D2.2NCBI
Mir449a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0244,897,601 - 44,897,691 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl244,897,601 - 44,897,691 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0263,935,154 - 63,935,244 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera240,445,141 - 40,445,231 (+)NCBICelera
Cytogenetic Map2q14NCBI
MIR449A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl242,541,949 - 42,542,039 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1242,541,949 - 42,542,039 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
NOTCH1hsa-miR-449aMirtarbaseexternal_infoChIP-seq//Luciferase reporter assayFunctional MTI21569010
CCN5hsa-miR-449aMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI19351815
SIRT1hsa-miR-449aMirtarbaseexternal_infoLuciferase reporter assay//Western blotFunctional MTI21418558
HNF4Ahsa-miR-449aMirtarbaseexternal_infoLuciferase reporter assay//Western blotFunctional MTI22232426
CDK6hsa-miR-449aMirtarbaseexternal_infoLuciferase reporter assay//Microarray//qRT-PCR//WeFunctional MTI19833767
HDAC1hsa-miR-449aMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blot//Functional MTI19252524
HDAC1hsa-miR-449aMirtarbaseexternal_infoImmunoblotFunctional MTI (Weak)20948989
HDAC8hsa-miR-449aMirtarbaseexternal_infoWestern blotNon-Functional MTI19252524
CCND1hsa-miR-449aMirtarbaseexternal_infoFlow//Immunoblot//Luciferase reporter assayFunctional MTI20948989
CDK4hsa-miR-449aMirtarbaseexternal_infoWestern blotFunctional MTI19833767
CDC25Ahsa-miR-449aTarbaseexternal_infoReporter GenePOSITIVE
CDC25Ahsa-miR-449aTarbaseexternal_infoWesternblitPOSITIVE
CCN5hsa-miR-449aMirecordsexternal_info{changed}NA19351815
METhsa-miR-449aOncomiRDBexternal_infoNANA22641068
HDAC1hsa-miR-449aOncomiRDBexternal_infoNANA22078727
MYCNhsa-miR-449aOncomiRDBexternal_infoNANA21654684
NOTCH1hsa-miR-449aOncomiRDBexternal_infoNANA21569010
GMNNhsa-miR-449aOncomiRDBexternal_infoNANA21418558
CCND1hsa-miR-449aOncomiRDBexternal_infoNANA20948989
CDK6hsa-miR-449aOncomiRDBexternal_infoNANA19833767
HDAC1hsa-miR-449aOncomiRDBexternal_infoNANA19252524

Predicted Targets
Summary Value
Count of predictions:33487
Count of gene targets:13731
Count of transcripts:28603
Interacting mature miRNAs:hsa-miR-449a
Prediction methods:Microtar, Miranda, Pita, Pita,Microtar, 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 hemolymphoid system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue appendage
High
Medium
Low 4 1 2 2 5 2 3 8 1
Below cutoff 5 2 3 3 7 3 5 3 4 4 5

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000362113
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl555,170,532 - 55,170,622 (-)Ensembl
RefSeq Acc Id: NR_029960
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38555,170,532 - 55,170,622 (-)NCBI
GRCh37554,466,360 - 54,466,450 (-)RGD
Celera551,419,206 - 51,419,296 (-)RGD
HuRef551,439,533 - 51,439,623 (-)RGD
CHM1_1554,469,853 - 54,469,943 (-)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 5q11.1-12.1(chr5:50288355-63149770)x1 copy number loss See cases [RCV000050797] Chr5:50288355..63149770 [GRCh38]
Chr5:49584189..62445597 [GRCh37]
Chr5:49619946..62481353 [NCBI36]
Chr5:5q11.1-12.1
pathogenic
GRCh38/hg38 5q11.1-11.2(chr5:50288355-56717370)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051838]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051838]|See cases [RCV000051838] Chr5:50288355..56717370 [GRCh38]
Chr5:49584189..56013197 [GRCh37]
Chr5:49619946..56048954 [NCBI36]
Chr5:5q11.1-11.2
pathogenic
GRCh38/hg38 5q11.2(chr5:53332485-57152396)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053283]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053283]|See cases [RCV000053283] Chr5:53332485..57152396 [GRCh38]
Chr5:52628315..56448223 [GRCh37]
Chr5:52664072..56483980 [NCBI36]
Chr5:5q11.2
uncertain significance
GRCh38/hg38 5q11.1-11.2(chr5:50462100-55862985)x1 copy number loss See cases [RCV000053451] Chr5:50462100..55862985 [GRCh38]
Chr5:49757934..55158813 [GRCh37]
Chr5:49793691..55194570 [NCBI36]
Chr5:5q11.1-11.2
pathogenic
GRCh38/hg38 5p13.2-q12.1(chr5:35201559-61903141)x3 copy number gain See cases [RCV000137302] Chr5:35201559..61903141 [GRCh38]
Chr5:35201661..61198968 [GRCh37]
Chr5:35237418..61234725 [NCBI36]
Chr5:5p13.2-q12.1
pathogenic
GRCh38/hg38 5p12-q11.2(chr5:45566861-56506493)x3 copy number gain See cases [RCV000138021] Chr5:45566861..56506493 [GRCh38]
Chr5:45566963..55802320 [GRCh37]
Chr5:45602720..55838077 [NCBI36]
Chr5:5p12-q11.2
uncertain significance
GRCh38/hg38 5p15.33-q13.3(chr5:22149-74412725)x3 copy number gain See cases [RCV000138780] Chr5:22149..74412725 [GRCh38]
Chr5:22149..73708550 [GRCh37]
Chr5:75149..73744306 [NCBI36]
Chr5:5p15.33-q13.3
pathogenic
GRCh38/hg38 5q11.2(chr5:55028257-55939697)x3 copy number gain See cases [RCV000139251] Chr5:55028257..55939697 [GRCh38]
Chr5:54324085..55235525 [GRCh37]
Chr5:54359842..55271282 [NCBI36]
Chr5:5q11.2
uncertain significance
GRCh37/hg19 5p15.33-q35.3(chr5:113577-180719789) copy number gain See cases [RCV000510723] Chr5:113577..180719789 [GRCh37]
Chr5:5p15.33-q35.3
pathogenic
GRCh37/hg19 5q11.2(chr5:53784524-54985838) copy number loss Abnormality of esophagus morphology [RCV000416715] Chr5:53784524..54985838 [GRCh37]
Chr5:5q11.2
likely benign
GRCh37/hg19 5p15.1-q35.2(chr5:17628741-176575720)x1 copy number loss See cases [RCV000511978] Chr5:17628741..176575720 [GRCh37]
Chr5:5p15.1-q35.2
pathogenic
GRCh37/hg19 5p15.33-q35.3(chr5:113577-180719789)x3 copy number gain See cases [RCV000512039] Chr5:113577..180719789 [GRCh37]
Chr5:5p15.33-q35.3
pathogenic
GRCh37/hg19 5p15.33-q35.3(chr5:25328-180693344)x3 copy number gain not provided [RCV000744323] Chr5:25328..180693344 [GRCh37]
Chr5:5p15.33-q35.3
pathogenic
GRCh37/hg19 5p15.33-q35.3(chr5:13648-180905029)x3 copy number gain not provided [RCV000744317] Chr5:13648..180905029 [GRCh37]
Chr5:5p15.33-q35.3
pathogenic
NC_000005.9:g.53180658_54552379dup duplication Neurodevelopmental disorder [RCV000787438] Chr5:53180658..54552379 [GRCh37]
Chr5:5q11.2
uncertain significance
Single allele deletion Neurodevelopmental disorder [RCV000787436] Chr5:14685137..149511942 [GRCh37]
Chr5:5p15.2-q32
uncertain significance

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:27645 AgrOrtholog
COSMIC MIR449A COSMIC
Ensembl Genes ENSG00000198983 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000362113 ENTREZGENE
GTEx ENSG00000198983 GTEx
HGNC ID HGNC:27645 ENTREZGENE
Human Proteome Map MIR449A Human Proteome Map
miRBase MI0001648 ENTREZGENE
NCBI Gene 554213 ENTREZGENE
OMIM 613131 OMIM
PharmGKB PA164722718 PharmGKB
RNAcentral URS00001F5B39 RNACentral
  URS00006A0D74 RNACentral