MIR1229 (microRNA 1229) - Rat Genome Database

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Gene: MIR1229 (microRNA 1229) Homo sapiens
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Symbol: MIR1229
Name: microRNA 1229
RGD ID: 2312966
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-1229; MIRN1229
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl5179,798,278 - 179,798,346 (-)EnsemblGRCh38hg38GRCh38
GRCh385179,798,278 - 179,798,346 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh375179,225,278 - 179,225,346 (-)NCBIGRCh37GRCh37hg19GRCh37
Celera5174,850,435 - 174,850,503 (-)NCBI
Cytogenetic Map5q35.3NCBI
HuRef5173,951,454 - 173,951,522 (-)NCBIHuRef
CHM1_15178,657,683 - 178,657,751 (-)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


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:17964270   PMID:26992223   PMID:30936013   PMID:31875034   PMID:31991575   PMID:32081926   PMID:32342519  


Genomics

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
VWA8hsa-miR-1229-3pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248

Predicted Targets
Summary Value
Count of predictions:58169
Count of gene targets:17188
Count of transcripts:41403
Interacting mature miRNAs:hsa-miR-1229-3p, hsa-miR-1229-5p
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
High
Medium 1 1 1
Low 77 36 44 13 37 10 73 18 71 8 32 51 3 20 47
Below cutoff 52 20 26 13 18 12 21 14 47 8 9 6 1 18 10

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000408467
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl5179,798,278 - 179,798,346 (-)Ensembl
RefSeq Acc Id: NR_031598
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh385179,798,278 - 179,798,346 (-)NCBI
GRCh375179,225,278 - 179,225,346 (-)RGD
Celera5174,850,435 - 174,850,503 (-)RGD
HuRef5173,951,454 - 173,951,522 (-)RGD
CHM1_15178,657,683 - 178,657,751 (-)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 5q33.3-35.3(chr5:156825512-181269805)x3 copy number gain See cases [RCV000133847] Chr5:156825512..181269805 [GRCh38]
Chr5:156252523..180696806 [GRCh37]
Chr5:156185101..180629412 [NCBI36]
Chr5:5q33.3-35.3
pathogenic
GRCh38/hg38 5q35.3(chr5:179669736-180897169)x1 copy number loss See cases [RCV000135285] Chr5:179669736..180897169 [GRCh38]
Chr5:179096737..180324169 [GRCh37]
Chr5:179029343..180256775 [NCBI36]
Chr5:5q35.3
likely pathogenic
GRCh38/hg38 5q34-35.3(chr5:164386701-181269805)x3 copy number gain See cases [RCV000135546] Chr5:164386701..181269805 [GRCh38]
Chr5:163813707..180696806 [GRCh37]
Chr5:163746285..180629412 [NCBI36]
Chr5:5q34-35.3
pathogenic
GRCh38/hg38 5q35.1-35.3(chr5:169334755-181285301)x3 copy number gain See cases [RCV000141249] Chr5:169334755..181285301 [GRCh38]
Chr5:168761759..180712302 [GRCh37]
Chr5:168694337..180644908 [NCBI36]
Chr5:5q35.1-35.3
pathogenic
GRCh38/hg38 5q35.2-35.3(chr5:175536771-181292788)x1 copy number loss See cases [RCV000141987] Chr5:175536771..181292788 [GRCh38]
Chr5:174963774..180719789 [GRCh37]
Chr5:174896380..180652395 [NCBI36]
Chr5:5q35.2-35.3
pathogenic
GRCh38/hg38 5q35.3(chr5:178235909-181292788)x3 copy number gain See cases [RCV000142298] Chr5:178235909..181292788 [GRCh38]
Chr5:177662910..180719789 [GRCh37]
Chr5:177595516..180652395 [NCBI36]
Chr5:5q35.3
likely pathogenic
GRCh38/hg38 5q35.2-35.3(chr5:176700128-181269805)x1 copy number loss See cases [RCV000142648] Chr5:176700128..181269805 [GRCh38]
Chr5:176127129..180696806 [GRCh37]
Chr5:176059735..180629412 [NCBI36]
Chr5:5q35.2-35.3
pathogenic
GRCh38/hg38 5q35.3(chr5:178529878-181269805)x3 copy number gain See cases [RCV000051205] Chr5:178529878..181269805 [GRCh38]
Chr5:177956879..180696806 [GRCh37]
Chr5:177889485..180629412 [NCBI36]
Chr5:5q35.3
uncertain significance
GRCh38/hg38 5q32-35.3(chr5:149714592-181272151)x3 copy number gain See cases [RCV000051863] Chr5:149714592..181272151 [GRCh38]
Chr5:149094155..180699152 [GRCh37]
Chr5:149074348..180631758 [NCBI36]
Chr5:5q32-35.3
pathogenic
GRCh38/hg38 5q33.3-35.3(chr5:160029980-181269805)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051865]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051865]|See cases [RCV000051865] Chr5:160029980..181269805 [GRCh38]
Chr5:159456987..180696806 [GRCh37]
Chr5:159389565..180629412 [NCBI36]
Chr5:5q33.3-35.3
pathogenic
GRCh38/hg38 5q34-35.3(chr5:168689326-181269946)x3 copy number gain See cases [RCV000051866] Chr5:168689326..181269946 [GRCh38]
Chr5:168116331..180696947 [GRCh37]
Chr5:168048909..180629553 [NCBI36]
Chr5:5q34-35.3
pathogenic
GRCh38/hg38 5q35.2-35.3(chr5:175889986-180793986)x3 copy number gain See cases [RCV000051868] Chr5:175889986..180793986 [GRCh38]
Chr5:175316989..180220986 [GRCh37]
Chr5:175249595..180153592 [NCBI36]
Chr5:5q35.2-35.3
pathogenic
GRCh38/hg38 5q35.3(chr5:179680598-180161082)x3 copy number gain See cases [RCV000053317] Chr5:179680598..180161082 [GRCh38]
Chr5:179107599..179588082 [GRCh37]
Chr5:179040205..179520688 [NCBI36]
Chr5:5q35.3
uncertain significance

Additional Information

Database Acc Id Source(s)
COSMIC MIR1229 COSMIC
Ensembl Genes ENSG00000221394 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000408467 ENTREZGENE
GTEx ENSG00000221394 GTEx
HGNC ID HGNC:33924 ENTREZGENE
Human Proteome Map MIR1229 Human Proteome Map
miRBase MI0006319 ENTREZGENE
NCBI Gene 100302156 ENTREZGENE
PharmGKB PA164722372 PharmGKB
RNAcentral URS000075BB29 RNACentral
  URS000075D553 RNACentral
  URS00008E395F RNACentral