MIR4645 (microRNA 4645) - Rat Genome Database

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Pathways
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Gene: MIR4645 (microRNA 4645) Homo sapiens
Analyze
Symbol: MIR4645
Name: microRNA 4645
RGD ID: 5134119
HGNC Page HGNC:41689
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 (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: mir-4645
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3862,854,031 - 2,854,107 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl62,854,031 - 2,854,107 (-)EnsemblGRCh38hg38GRCh38
GRCh3762,854,265 - 2,854,341 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map6p25.2NCBI
HuRef62,727,680 - 2,727,756 (-)NCBIHuRef
CHM1_162,856,746 - 2,856,822 (-)NCBICHM1_1
T2T-CHM13v2.062,720,160 - 2,720,236 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:16381832   PMID:21037258   PMID:21199797  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 6p25.3-24.1(chr6:164360-13339881)x3 copy number gain See cases [RCV000134022] Chr6:164360..13339881 [GRCh38]
Chr6:164360..13340113 [GRCh37]
Chr6:109360..13448092 [NCBI36]
Chr6:6p25.3-24.1		 pathogenic
GRCh38/hg38 6p25.2(chr6:2380066-3313353)x3 copy number gain See cases [RCV000134886] Chr6:2380066..3313353 [GRCh38]
Chr6:2380300..3313587 [GRCh37]
Chr6:2325299..3258586 [NCBI36]
Chr6:6p25.2		 uncertain significance
GRCh38/hg38 6p25.3-24.3(chr6:163083-9525496)x3 copy number gain See cases [RCV000136567] Chr6:163083..9525496 [GRCh38]
Chr6:163083..9525729 [GRCh37]
Chr6:108083..9633715 [NCBI36]
Chr6:6p25.3-24.3		 pathogenic
GRCh38/hg38 6p25.3-25.1(chr6:152634-5315679)x1 copy number loss See cases [RCV000137496] Chr6:152634..5315679 [GRCh38]
Chr6:152634..5315912 [GRCh37]
Chr6:97634..5260911 [NCBI36]
Chr6:6p25.3-25.1		 pathogenic
GRCh38/hg38 6p25.3-25.2(chr6:163083-3459607)x1 copy number loss See cases [RCV000138184] Chr6:163083..3459607 [GRCh38]
Chr6:163083..3459841 [GRCh37]
Chr6:108083..3404840 [NCBI36]
Chr6:6p25.3-25.2		 pathogenic
GRCh38/hg38 6p25.3-22.3(chr6:152634-15732163)x3 copy number gain See cases [RCV000138121] Chr6:152634..15732163 [GRCh38]
Chr6:152634..15732394 [GRCh37]
Chr6:97634..15840373 [NCBI36]
Chr6:6p25.3-22.3		 likely benign
GRCh38/hg38 6p25.3-25.1(chr6:152634-6027547)x3 copy number gain See cases [RCV000138716] Chr6:152634..6027547 [GRCh38]
Chr6:152634..6027780 [GRCh37]
Chr6:97634..5972779 [NCBI36]
Chr6:6p25.3-25.1		 likely pathogenic
GRCh38/hg38 6p25.3-25.1(chr6:152634-6027547)x1 copy number loss See cases [RCV000138717] Chr6:152634..6027547 [GRCh38]
Chr6:152634..6027780 [GRCh37]
Chr6:97634..5972779 [NCBI36]
Chr6:6p25.3-25.1		 pathogenic
GRCh38/hg38 6p25.3-22.3(chr6:155807-17058414)x3 copy number gain See cases [RCV000140307] Chr6:155807..17058414 [GRCh38]
Chr6:155807..17058645 [GRCh37]
Chr6:100807..17166624 [NCBI36]
Chr6:6p25.3-22.3		 pathogenic
GRCh38/hg38 6p25.3-24.2(chr6:156974-11550817)x3 copy number gain See cases [RCV000142295] Chr6:156974..11550817 [GRCh38]
Chr6:156974..11551050 [GRCh37]
Chr6:101974..11659036 [NCBI36]
Chr6:6p25.3-24.2		 likely pathogenic
GRCh38/hg38 6p25.3-24.3(chr6:156974-7122759)x1 copy number loss See cases [RCV000142299] Chr6:156974..7122759 [GRCh38]
Chr6:156974..7122992 [GRCh37]
Chr6:101974..7067991 [NCBI36]
Chr6:6p25.3-24.3		 pathogenic
GRCh38/hg38 6p25.3-25.1(chr6:156974-4907692)x1 copy number loss See cases [RCV000142304] Chr6:156974..4907692 [GRCh38]
Chr6:156974..4907926 [GRCh37]
Chr6:101974..4852925 [NCBI36]
Chr6:6p25.3-25.1		 pathogenic
GRCh38/hg38 6p25.3-25.1(chr6:152634-6289804)x1 copy number loss See cases [RCV000142916] Chr6:152634..6289804 [GRCh38]
Chr6:152634..6290037 [GRCh37]
Chr6:97634..6235036 [NCBI36]
Chr6:6p25.3-25.1		 pathogenic
GRCh38/hg38 6p25.3-25.1(chr6:156974-4946857)x3 copy number gain See cases [RCV000143375] Chr6:156974..4946857 [GRCh38]
Chr6:156974..4947091 [GRCh37]
Chr6:101974..4892090 [NCBI36]
Chr6:6p25.3-25.1		 uncertain significance
GRCh38/hg38 6p25.3-23(chr6:152634-14417003)x3 copy number gain See cases [RCV000143334] Chr6:152634..14417003 [GRCh38]
Chr6:152634..14417234 [GRCh37]
Chr6:97634..14525213 [NCBI36]
Chr6:6p25.3-23		 pathogenic
GRCh38/hg38 6p25.3-24.1(chr6:156974-13081201)x3 copy number gain See cases [RCV000143698] Chr6:156974..13081201 [GRCh38]
Chr6:156974..13081433 [GRCh37]
Chr6:101974..13189419 [NCBI36]
Chr6:6p25.3-24.1		 likely pathogenic
GRCh38/hg38 6p25.3-23(chr6:156974-13855925)x1 copy number loss See cases [RCV000143782] Chr6:156974..13855925 [GRCh38]
Chr6:156974..13856156 [GRCh37]
Chr6:101974..13964135 [NCBI36]
Chr6:6p25.3-23		 pathogenic
GRCh38/hg38 6p25.3-12.3(chr6:156974-46789291)x3 copy number gain See cases [RCV000143497] Chr6:156974..46789291 [GRCh38]
Chr6:156974..46757028 [GRCh37]
Chr6:101974..46864987 [NCBI36]
Chr6:6p25.3-12.3		 pathogenic
GRCh38/hg38 6p25.3-25.1(chr6:163083-6062800)x1 copy number loss See cases [RCV000050686] Chr6:163083..6062800 [GRCh38]
Chr6:163083..6063033 [GRCh37]
Chr6:108083..6008032 [NCBI36]
Chr6:6p25.3-25.1		 pathogenic
GRCh38/hg38 6p25.3-22.3(chr6:106431-18360595)x3 copy number gain See cases [RCV000051869] Chr6:106431..18360595 [GRCh38]
Chr6:106431..18360826 [GRCh37]
Chr6:51431..18468805 [NCBI36]
Chr6:6p25.3-22.3		 pathogenic
GRCh38/hg38 6p25.3-25.1(chr6:144957-5239181)x3 copy number gain See cases [RCV000051870] Chr6:144957..5239181 [GRCh38]
Chr6:144957..5239414 [GRCh37]
Chr6:89957..5184413 [NCBI36]
Chr6:6p25.3-25.1		 pathogenic
GRCh38/hg38 6p25.3-23(chr6:389423-13474956)x3 copy number gain See cases [RCV000051896] Chr6:389423..13474956 [GRCh38]
Chr6:389423..13475188 [GRCh37]
Chr6:334423..13583167 [NCBI36]
Chr6:6p25.3-23		 pathogenic
GRCh38/hg38 6p25.3-25.1(chr6:107682-4978781)x1 copy number loss See cases [RCV000052159] Chr6:107682..4978781 [GRCh38]
Chr6:107682..4979015 [GRCh37]
Chr6:52682..4924014 [NCBI36]
Chr6:6p25.3-25.1		 pathogenic
GRCh38/hg38 6p25.3-25.1(chr6:162883-5979198)x1 copy number loss Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052160]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052160]|See cases [RCV000052160] Chr6:162883..5979198 [GRCh38]
Chr6:162883..5979431 [GRCh37]
Chr6:107883..5924430 [NCBI36]
Chr6:6p25.3-25.1		 pathogenic
GRCh38/hg38 6p25.3-25.1(chr6:163083-5875402)x1 copy number loss See cases [RCV000052161] Chr6:163083..5875402 [GRCh38]
Chr6:163083..5875635 [GRCh37]
Chr6:108083..5820634 [NCBI36]
Chr6:6p25.3-25.1		 pathogenic
GRCh38/hg38 6p25.3-25.1(chr6:164633-6284237)x1 copy number loss See cases [RCV000052163] Chr6:164633..6284237 [GRCh38]
Chr6:164633..6284470 [GRCh37]
Chr6:109633..6229469 [NCBI36]
Chr6:6p25.3-25.1		 pathogenic
GRCh38/hg38 6p25.3-25.1(chr6:164633-5823601)x1 copy number loss See cases [RCV000052164] Chr6:164633..5823601 [GRCh38]
Chr6:164633..5823834 [GRCh37]
Chr6:109633..5768833 [NCBI36]
Chr6:6p25.3-25.1		 pathogenic
GRCh38/hg38 6p25.3-24.3(chr6:165675-9036034)x1 copy number loss See cases [RCV000052165] Chr6:165675..9036034 [GRCh38]
Chr6:165675..9036267 [GRCh37]
Chr6:110675..8981266 [NCBI36]
Chr6:6p25.3-24.3		 pathogenic
GRCh38/hg38 6p25.3-25.2(chr6:1796838-2854327)x3 copy number gain See cases [RCV000053338] Chr6:1796838..2854327 [GRCh38]
Chr6:1797072..2854561 [GRCh37]
Chr6:1742071..2799560 [NCBI36]
Chr6:6p25.3-25.2		 uncertain significance
miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:41405
Count of gene targets:15504
Count of transcripts:33773
Interacting mature miRNAs:hsa-miR-4645-3p, hsa-miR-4645-5p
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 sensory system adipose tissue appendage entire extraembryonic component
High
Medium 10 5 10 3 253 5 5 2 4 33 26 35 2 1
Low 105 27 157 109 330 110 118 19 74 167 188 196 1 5 9 2
Below cutoff 17 11 9 4 16 3 16 17 30 11 7 15 1 3 9 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000583158
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl62,854,031 - 2,854,107 (-)Ensembl
RefSeq Acc Id: NR_039788
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh3862,854,031 - 2,854,107 (-)NCBI
GRCh3762,854,265 - 2,854,341 (-)ENTREZGENE
HuRef62,727,680 - 2,727,756 (-)ENTREZGENE
CHM1_162,856,746 - 2,856,822 (-)NCBI
T2T-CHM13v2.062,720,160 - 2,720,236 (-)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC MIR4645 COSMIC
Ensembl Genes ENSG00000266750 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000583158 ENTREZGENE
GTEx ENSG00000266750 GTEx
HGNC ID HGNC:41689 ENTREZGENE
Human Proteome Map MIR4645 Human Proteome Map
miRBase MI0017272 ENTREZGENE
NCBI Gene 100616285 ENTREZGENE
RNAcentral URS000010BD8D RNACentral
  URS0000212118 RNACentral
  URS000075BC80 RNACentral