MIR449C (microRNA 449c) - Rat Genome Database

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Gene: MIR449C (microRNA 449c) Homo sapiens
Analyze
Symbol: MIR449C
Name: microRNA 449c
RGD ID: 3476300
HGNC Page HGNC
Description: Predicted to act upstream of or within several processes, including cellular response to leukemia inhibitory factor; embryonic brain development; and motile cilium assembly.
Type: ncrna
RefSeq Status: PROVISIONAL
Also known as: mir-449c
RGD Orthologs
Mouse
Rat
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 Ensembl555,172,262 - 55,172,353 (-)EnsemblGRCh38hg38GRCh38
GRCh38555,172,262 - 55,172,353 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37554,468,090 - 54,468,181 (-)NCBIGRCh37GRCh37hg19GRCh37
Celera551,420,936 - 51,421,027 (-)NCBI
Cytogenetic Map5q11.2NCBI
HuRef551,441,263 - 51,441,354 (-)NCBIHuRef
CHM1_1554,471,583 - 54,471,674 (-)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
References

References - curated
1. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16381832   PMID:16954537   PMID:19390579   PMID:21037258   PMID:23507140   PMID:27371842  


Genomics

Comparative Map Data
MIR449C
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl555,172,262 - 55,172,353 (-)EnsemblGRCh38hg38GRCh38
GRCh38555,172,262 - 55,172,353 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37554,468,090 - 54,468,181 (-)NCBIGRCh37GRCh37hg19GRCh37
Celera551,420,936 - 51,421,027 (-)NCBI
Cytogenetic Map5q11.2NCBI
HuRef551,441,263 - 51,441,354 (-)NCBIHuRef
CHM1_1554,471,583 - 54,471,674 (-)NCBICHM1_1
Mir449c
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3913113,172,517 - 113,172,625 (+)NCBIGRCm39mm39
GRCm39 Ensembl13113,172,517 - 113,172,625 (+)Ensembl
GRCm3813113,035,983 - 113,036,091 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl13113,035,983 - 113,036,091 (+)EnsemblGRCm38mm10GRCm38
MGSCv3713113,826,191 - 113,826,299 (+)NCBIGRCm37mm9NCBIm37
Celera13117,354,011 - 117,354,119 (+)NCBICelera
Cytogenetic Map13D2.2NCBI
Mir449c
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2244,669,179 - 44,669,277 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl244,669,179 - 44,669,277 (+)Ensembl
Rnor_6.0244,896,066 - 44,896,164 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl244,896,066 - 44,896,164 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0263,933,619 - 63,933,717 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera240,443,606 - 40,443,704 (+)NCBICelera
Cytogenetic Map2q14NCBI

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
C2orf69hsa-miR-449c-3pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248
MYChsa-miR-449c-5pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI23507140
KCND3hsa-miR-449c-5pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248

Predicted Targets
Summary Value
Count of predictions:45237
Count of gene targets:15750
Count of transcripts:34828
Interacting mature miRNAs:hsa-miR-449c-3p, hsa-miR-449c-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 hemolymphoid system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system adipose tissue appendage entire extraembryonic component
High
Medium
Low 7 2 4 19 4 1 2 4 17 8 3 1
Below cutoff 4 5 3 14 7 8 2 2 10 6 3 4

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000516047
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl555,172,262 - 55,172,353 (-)Ensembl
RefSeq Acc Id: NR_031572
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38555,172,262 - 55,172,353 (-)NCBI
GRCh37554,468,090 - 54,468,181 (-)RGD
Celera551,420,936 - 51,421,027 (-)RGD
HuRef551,441,263 - 51,441,354 (-)RGD
CHM1_1554,471,583 - 54,471,674 (-)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
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
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 5q11.1-11.2(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 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

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:37302 AgrOrtholog
COSMIC MIR449C COSMIC
Ensembl Genes ENSG00000251856 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000516047 ENTREZGENE
GTEx ENSG00000251856 GTEx
HGNC ID HGNC:37302 ENTREZGENE
Human Proteome Map MIR449C Human Proteome Map
miRBase MI0003823 ENTREZGENE
NCBI Gene 100313923 ENTREZGENE
PharmGKB PA165660386 PharmGKB
RNAcentral URS00002198F3 RNACentral
  URS000075D49E RNACentral
  URS000075DBB5 RNACentral