MIR1296 (microRNA 1296) - Rat Genome Database
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Gene: MIR1296 (microRNA 1296) Homo sapiens
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Symbol: MIR1296
Name: microRNA 1296
RGD ID: 2312969
HGNC Page HGNC
Description: microRNAs (miRNAs) are short (20-24 nt) non-coding RNAs that are involved in post-transcriptional regulation of gene expression in multicellular organisms by affecting both the stability and translation of mRNAs. miRNAs are transcribed by RNA polymerase II as part of capped and polyadenylated primary transcripts (pri-miRNAs) that can be either protein-coding or non-coding. The primary transcript is cleaved by the Drosha ribonuclease III enzyme to produce an approximately 70-nt stem-loop precursor miRNA (pre-miRNA), which is further cleaved by the cytoplasmic Dicer ribonuclease to generate the mature miRNA and antisense miRNA star (miRNA*) products. The mature miRNA is incorporated into a RNA-induced silencing complex (RISC), which recognizes target mRNAs through imperfect base pairing with the miRNA and most commonly results in translational inhibition or destabilization of the target mRNA. The RefSeq represents the predicted microRNA stem-loop. [provided by RefSeq, Sep 2009]
Type: ncrna
RefSeq Status: PROVISIONAL
Also known as: hsa-mir-1296; mir-1296; MIRN1296
RGD Orthologs
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 Ensembl1063,372,957 - 63,373,048 (-)EnsemblGRCh38hg38GRCh38
GRCh381063,372,957 - 63,373,048 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371065,132,717 - 65,132,808 (-)NCBIGRCh37GRCh37hg19GRCh37
Celera1058,400,228 - 58,400,319 (-)NCBI
Cytogenetic Map10q21.3NCBI
HuRef1059,124,395 - 59,124,486 (-)NCBIHuRef
CHM1_11065,414,768 - 65,414,859 (-)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:18285502   PMID:19508715   PMID:19820697   PMID:21037258   PMID:22001757   PMID:23034410   PMID:25201988   PMID:26646931   PMID:26799586   PMID:28099468  
PMID:28606154   PMID:30530570   PMID:31625373  


Genomics

Comparative Map Data
MIR1296
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1063,372,957 - 63,373,048 (-)EnsemblGRCh38hg38GRCh38
GRCh381063,372,957 - 63,373,048 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371065,132,717 - 65,132,808 (-)NCBIGRCh37GRCh37hg19GRCh37
Celera1058,400,228 - 58,400,319 (-)NCBI
Cytogenetic Map10q21.3NCBI
HuRef1059,124,395 - 59,124,486 (-)NCBIHuRef
CHM1_11065,414,768 - 65,414,859 (-)NCBICHM1_1
MIR1296
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1415,180,088 - 15,180,212 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl415,180,088 - 15,180,212 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha415,397,330 - 15,397,454 (-)NCBI
ROS_Cfam_1.0415,444,739 - 15,444,863 (-)NCBI
UMICH_Zoey_3.1415,426,564 - 15,426,688 (-)NCBI
UNSW_CanFamBas_1.0415,555,900 - 15,556,024 (-)NCBI
UU_Cfam_GSD_1.0415,907,369 - 15,907,493 (-)NCBI
MIR1296
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1466,819,703 - 66,819,787 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11466,819,703 - 66,819,787 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21472,055,628 - 72,055,712 (-)NCBISscrofa10.2Sscrofa10.2susScr3

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
MCM2hsa-miR-1296-5pMirtarbaseexternal_infoqRT-PCR//Western blotFunctional MTI20332239
C1orf112hsa-miR-1296-5pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248

Predicted Targets
Summary Value
Count of predictions:82650
Count of gene targets:22497
Count of transcripts:61773
Interacting mature miRNAs:hsa-miR-1296-3p, hsa-miR-1296-5p
Prediction methods:Microtar, Miranda, Pita, 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 1 1 3 10 1 1 2
Low 59 41 71 29 155 30 143 40 104 59 123 127 3 14 45 3
Below cutoff 35 35 29 10 21 8 70 26 72 9 31 42 3 33 34

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000408136
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1063,372,957 - 63,373,048 (-)Ensembl
RefSeq Acc Id: NR_031566
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381063,372,957 - 63,373,048 (-)NCBI
GRCh371065,132,717 - 65,132,808 (-)RGD
Celera1058,400,228 - 58,400,319 (-)RGD
HuRef1059,124,395 - 59,124,486 (-)RGD
CHM1_11065,414,768 - 65,414,859 (-)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 10q11.21-22.2(chr10:42685306-73715908)x3 copy number gain See cases [RCV000134848] Chr10:42685306..73715908 [GRCh38]
Chr10:43180754..75475666 [GRCh37]
Chr10:42500760..75145672 [NCBI36]
Chr10:10q11.21-22.2
pathogenic
GRCh38/hg38 10q21.3(chr10:63264665-63380483)x1 copy number loss See cases [RCV000135685] Chr10:63264665..63380483 [GRCh38]
Chr10:65024425..65140243 [GRCh37]
Chr10:64694431..64810249 [NCBI36]
Chr10:10q21.3
likely benign
GRCh38/hg38 10q11.23-23.2(chr10:50729367-87147204)x3 copy number gain See cases [RCV000138007] Chr10:50729367..87147204 [GRCh38]
Chr10:52489127..88906961 [GRCh37]
Chr10:52159133..88896941 [NCBI36]
Chr10:10q11.23-23.2
pathogenic
GRCh38/hg38 10q21.1-21.3(chr10:55287177-67558442)x3 copy number gain See cases [RCV000141179] Chr10:55287177..67558442 [GRCh38]
Chr10:57046937..69318200 [GRCh37]
Chr10:56716943..68988206 [NCBI36]
Chr10:10q21.1-21.3
pathogenic
GRCh38/hg38 10q11.21-21.3(chr10:42112187-67400675)x3 copy number gain See cases [RCV000142967] Chr10:42112187..67400675 [GRCh38]
Chr10:42607635..69160433 [GRCh37]
Chr10:41927641..68830439 [NCBI36]
Chr10:10q11.21-21.3
pathogenic
GRCh38/hg38 10q21.1-22.2(chr10:58436466-74415216)x1 copy number loss See cases [RCV000052511] Chr10:58436466..74415216 [GRCh38]
Chr10:60196226..76174974 [GRCh37]
Chr10:59866232..75844980 [NCBI36]
Chr10:10q21.1-22.2
pathogenic
GRCh38/hg38 10q21.2-22.2(chr10:62229688-74468143)x1 copy number loss See cases [RCV000052530] Chr10:62229688..74468143 [GRCh38]
Chr10:63989447..76227901 [GRCh37]
Chr10:63659453..75897907 [NCBI36]
Chr10:10q21.2-22.2
pathogenic

Additional Information

Database Acc Id Source(s)
COSMIC MIR1296 COSMIC
Ensembl Genes ENSG00000221063 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000408136 ENTREZGENE
GTEx ENSG00000221063 GTEx
HGNC ID HGNC:35249 ENTREZGENE
Human Proteome Map MIR1296 Human Proteome Map
miRBase MI0003780 ENTREZGENE
NCBI Gene 100302150 ENTREZGENE
PharmGKB PA164722450 PharmGKB
RNAcentral URS000002103A RNACentral
  URS000075B7D1 RNACentral
  URS000075CA1B RNACentral