Ddx23 (DEAD box helicase 23) - Rat Genome Database

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Gene: Ddx23 (DEAD box helicase 23) Mus musculus
Analyze
Symbol: Ddx23
Name: DEAD box helicase 23
RGD ID: 1318601
MGI Page MGI
Description: Predicted to enable mRNA binding activity. Predicted to be involved in R-loop processing and mRNA splicing, via spliceosome. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of catalytic step 2 spliceosome; chromatin; and spliceosomal snRNP complex. Orthologous to human DDX23 (DEAD-box helicase 23).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 3110082M05Rik; 4921506D17Rik; DEAD (Asp-Glu-Ala-Asp) box polypeptide 23; probable ATP-dependent RNA helicase DDX23
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: Gm18887  
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391598,543,012 - 98,560,808 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1598,543,015 - 98,560,775 (-)EnsemblGRCm39 Ensembl
GRCm381598,645,379 - 98,662,928 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1598,645,134 - 98,662,894 (-)EnsemblGRCm38mm10GRCm38
MGSCv371598,475,938 - 98,493,320 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361598,473,541 - 98,490,923 (-)NCBIMGSCv36mm8
Celera15100,794,107 - 100,811,425 (-)NCBICelera
Cytogenetic Map15F1NCBI
cM Map1554.65NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Functions of the DExD/H-box proteins in nuclear pre-mRNA splicing. Chang TH, etal., Biochim Biophys Acta. 2013 Aug;1829(8):764-74. doi: 10.1016/j.bbagrm.2013.02.006. Epub 2013 Feb 21.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. The spliceosome: design principles of a dynamic RNP machine. Wahl MC, etal., Cell. 2009 Feb 20;136(4):701-18. doi: 10.1016/j.cell.2009.02.009.
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:12520002   PMID:12904583   PMID:14610273   PMID:16141072   PMID:16141073   PMID:17967808  
PMID:18799693   PMID:21267068   PMID:21677750   PMID:21873635   PMID:30409884   PMID:31162944  


Genomics

Comparative Map Data
Ddx23
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391598,543,012 - 98,560,808 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1598,543,015 - 98,560,775 (-)EnsemblGRCm39 Ensembl
GRCm381598,645,379 - 98,662,928 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1598,645,134 - 98,662,894 (-)EnsemblGRCm38mm10GRCm38
MGSCv371598,475,938 - 98,493,320 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361598,473,541 - 98,490,923 (-)NCBIMGSCv36mm8
Celera15100,794,107 - 100,811,425 (-)NCBICelera
Cytogenetic Map15F1NCBI
cM Map1554.65NCBI
DDX23
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381248,829,756 - 48,852,163 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1248,829,756 - 48,852,842 (-)EnsemblGRCh38hg38GRCh38
GRCh371249,223,539 - 49,245,946 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361247,509,806 - 47,532,224 (-)NCBINCBI36Build 36hg18NCBI36
Build 341247,509,806 - 47,532,224NCBI
Celera1248,019,665 - 48,042,067 (-)NCBICelera
Cytogenetic Map12q13.12NCBI
HuRef1246,256,781 - 46,278,800 (-)NCBIHuRef
CHM1_11249,189,355 - 49,211,761 (-)NCBICHM1_1
T2T-CHM13v2.01248,791,783 - 48,814,355 (-)NCBIT2T-CHM13v2.0
Ddx23
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87131,676,636 - 131,693,917 (-)NCBIGRCr8
mRatBN7.27129,797,620 - 129,814,909 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7129,797,614 - 129,814,949 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7131,604,960 - 131,622,123 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07133,830,506 - 133,847,669 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07133,743,008 - 133,760,171 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07140,325,453 - 140,342,730 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7140,325,431 - 140,342,727 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X114,828,726 - 114,846,002 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47137,394,834 - 137,412,075 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17137,471,818 - 137,488,539 (-)NCBI
Celera7126,287,854 - 126,305,095 (-)NCBICelera
Cytogenetic Map7q36NCBI
Ddx23
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555007,685,954 - 7,695,765 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555007,685,954 - 7,698,880 (-)NCBIChiLan1.0ChiLan1.0
DDX23
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21045,329,615 - 45,351,501 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11245,326,375 - 45,348,262 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01239,896,354 - 39,917,195 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11240,774,975 - 40,796,466 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1240,774,975 - 40,796,466 (+)Ensemblpanpan1.1panPan2
DDX23
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1275,690,452 - 5,704,762 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl275,693,931 - 5,704,778 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2740,553,181 - 40,567,447 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0275,741,282 - 5,755,600 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl275,744,758 - 5,755,600 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1275,705,190 - 5,719,452 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0275,695,245 - 5,709,552 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02740,945,432 - 40,959,725 (-)NCBIUU_Cfam_GSD_1.0
Ddx23
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494566,481,233 - 66,497,853 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365126,666,814 - 6,682,728 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365126,666,972 - 6,682,596 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DDX23
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl514,888,958 - 14,899,174 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1514,888,951 - 14,909,741 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2515,182,736 - 15,185,393 (-)NCBISscrofa10.2Sscrofa10.2susScr3
DDX23
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11145,071,884 - 45,092,287 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1145,071,611 - 45,092,646 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037201,054,301 - 201,075,103 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ddx23
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248163,320,065 - 3,334,559 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248163,320,218 - 3,334,198 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ddx23
599 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1029
Count of miRNA genes:517
Interacting mature miRNAs:612
Transcripts:ENSMUST00000003450, ENSMUST00000159170, ENSMUST00000159423, ENSMUST00000160506, ENSMUST00000161030, ENSMUST00000162384
Prediction methods:Miranda, 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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
26884442Sklq6_mskull length QTL 6, 5 week (mouse)156129481100797881Mouse
1357526Hyplip2_mhyperlipidemia 2 (mouse)Not determined1512402203102896555Mouse
26884425Cvht2_mcranial vault height 2, 5 week (mouse)1528800146102008435Mouse
1558985Eae32_mexperimental allergic encephalomyelitis susceptibility 32 (mouse)Not determined1532578416103425899Mouse
26884399Humsd1_mhumerus midshaft diameter 1, 5 week (mouse)1548363396101708435Mouse
1302074Bmd4_mbone mineral density 4 (mouse)Not determined1556186708103425899Mouse
1302197Bhr2_mbronchial hyperresponsiveness 2 (mouse)Not determined1564306334103425899Mouse
4141135Cia35_mcollagen induced arthritis 35 (mouse)Not determined156481182698811946Mouse
1301119Drb7_mdopamine receptor binding 7 (mouse)Not determined156533657899341028Mouse
1301171Brm2_mbrachyury modifier 2 (mouse)Not determined156552537699525499Mouse
4141921Pstc3_mperiosteal circumference 3 (mouse)Not determined1567270698101270847Mouse
1300627Sluc26_msusceptibility to lung cancer 26 (mouse)Not determined1570345653104073951Mouse
1300648Dbsty4_mdiabesity 4 (mouse)Not determined1570349271104073951Mouse
1300726Pitm4_mprion incubation time 4 (mouse)Not determined1570349271104073951Mouse
14747011Mancz13_mmandible centroid size 13 (mouse)1572382669104073951Mouse
12791003Aath8_maortic arch atherosclerosis 8 (mouse)1573430144104073951Mouse
1300851Heal4_mwound healing/regeneration 4 (mouse)Not determined1577527592104073951Mouse
4142060W3q6_mweight 3 weeks QTL 6 (mouse)Not determined78601103102901704Mouse
1357894Epfpq3_mepididymal fat percentage QTL 3 (mouse)Not determined1578601103102901704Mouse
14928306Manh79_mmandible shape 79 (mouse)1578847557104073951Mouse
12880411V125Dq11_mvitamin D active form serum level QTL 11 (mouse)1578897881104073951Mouse
10402490Dipa5_mdrug induced psychomotor activation 5 (mouse)Not determined1579163411104073951Mouse
4141897Imrfq2_mimmune response to Factor IX QTL 2 (mouse)Not determined79908940104073951Mouse
1301284Cosz3_mcocaine seizure 3 (mouse)Not determined1580313634104073951Mouse
4141902Cia37_mcollagen induced arthritis 37 (mouse)Not determined1580884933104073951Mouse
1300974Pgia9_mproteoglycan induced arthritis 9 (mouse)Not determined1580884933104073951Mouse
4141511Gdcr1_mglycerolphosphate dehydrogenase regulator 1 (mouse)Not determined82615474104073951Mouse
11530037Sluc34a_msusceptibility to lung cancer 34a (mouse)1585896437104073951Mouse
11530038Sluc34b_msusceptibility to lung cancer 34b (mouse)1585896437104073951Mouse
1357614Bmca_mbile mucin accumulation (mouse)Not determined1585896437104073951Mouse
1301918Skull22_mskull morphology 22 (mouse)Not determined1585901546104073951Mouse
4141581Dshv1_mdorsal hippocampal volume 1 (mouse)Not determined92788640103425899Mouse
14700689Carg5_mCandida albicans resistance gene 5 (mouse)1597697881103008427Mouse
11528547Sluc34_msusceptibility to lung cancer 34 (mouse)1597884933102896555Mouse

Markers in Region
UniSTS:237398  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381598,648,208 - 98,648,523UniSTSGRCm38
MGSCv371598,478,639 - 98,478,954UniSTSGRCm37
Celera15100,796,809 - 100,797,124UniSTS
Cytogenetic Map15F2UniSTS


Expression


Sequence


RefSeq Acc Id: ENSMUST00000003450   ⟹   ENSMUSP00000003450
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1598,543,015 - 98,560,770 (-)Ensembl
GRCm38.p6 Ensembl1598,645,134 - 98,662,889 (-)Ensembl
RefSeq Acc Id: ENSMUST00000159170
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1598,555,774 - 98,560,770 (-)Ensembl
GRCm38.p6 Ensembl1598,657,893 - 98,662,889 (-)Ensembl
RefSeq Acc Id: ENSMUST00000159423
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1598,545,884 - 98,560,762 (-)Ensembl
GRCm38.p6 Ensembl1598,648,003 - 98,662,881 (-)Ensembl
RefSeq Acc Id: ENSMUST00000160506
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1598,545,872 - 98,560,765 (-)Ensembl
GRCm38.p6 Ensembl1598,647,991 - 98,662,884 (-)Ensembl
RefSeq Acc Id: ENSMUST00000161030
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1598,550,100 - 98,560,765 (-)Ensembl
GRCm38.p6 Ensembl1598,652,219 - 98,662,884 (-)Ensembl
RefSeq Acc Id: ENSMUST00000162384   ⟹   ENSMUSP00000125168
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1598,554,560 - 98,560,739 (-)Ensembl
GRCm38.p6 Ensembl1598,656,679 - 98,662,858 (-)Ensembl
RefSeq Acc Id: ENSMUST00000228973
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1598,559,887 - 98,560,775 (-)Ensembl
GRCm38.p6 Ensembl1598,662,006 - 98,662,894 (-)Ensembl
RefSeq Acc Id: NM_001080981   ⟹   NP_001074450
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391598,543,388 - 98,560,770 (-)NCBI
GRCm381598,645,507 - 98,662,889 (-)NCBI
MGSCv371598,475,938 - 98,493,320 (-)RGD
Celera15100,794,107 - 100,811,425 (-)RGD
cM Map15 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006521493   ⟹   XP_006521556
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391598,543,012 - 98,560,808 (-)NCBI
GRCm381598,645,379 - 98,662,928 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001074450 (Get FASTA)   NCBI Sequence Viewer  
  XP_006521556 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL04176 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000003450
  ENSMUSP00000003450.9
  ENSMUSP00000125168.2
RefSeq Acc Id: NP_001074450   ⟸   NM_001080981
- UniProtKB: D3Z0M9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006521556   ⟸   XM_006521493
- Peptide Label: isoform X1
- UniProtKB: D3Z0M9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000003450   ⟸   ENSMUST00000003450
RefSeq Acc Id: ENSMUSP00000125168   ⟸   ENSMUST00000162384
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3Z0M9-F1-model_v2 AlphaFold D3Z0M9 1-819 view protein structure

Promoters
RGD ID:6825918
Promoter ID:MM_KWN:19628
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:NM_001080981,   UC007XNF.1,   UC007XNG.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361598,492,904 - 98,493,404 (-)MPROMDB
RGD ID:8684928
Promoter ID:EPDNEW_M20494
Type:initiation region
Name:Ddx23_1
Description:Mus musculus DEAD (Asp-Glu-Ala-Asp) box polypeptide 23 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381598,662,904 - 98,662,964EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1921601 AgrOrtholog
Ensembl Genes ENSMUSG00000003360 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000003450 ENTREZGENE
  ENSMUST00000003450.15 UniProtKB/TrEMBL
  ENSMUST00000162384.2 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/TrEMBL
InterPro DNA/RNA_helicase_DEAD/DEAH_N UniProtKB/TrEMBL
  Helicase_ATP-bd UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  RNA-helicase_DEAD-box_CS UniProtKB/TrEMBL
  RNA_helicase_DEAD_Q_motif UniProtKB/TrEMBL
KEGG Report mmu:74351 UniProtKB/TrEMBL
MGD MGI:1921601 ENTREZGENE
NCBI Gene 74351 ENTREZGENE
PANTHER ATP-DEPENDENT RNA HELICASE DBP3 UniProtKB/TrEMBL
  RNA HELICASE UniProtKB/TrEMBL
Pfam DEAD UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
PhenoGen Ddx23 PhenoGen
PROSITE DEAD_ATP_HELICASE UniProtKB/TrEMBL
  HELICASE_ATP_BIND_1 UniProtKB/TrEMBL
  HELICASE_CTER UniProtKB/TrEMBL
  Q_MOTIF UniProtKB/TrEMBL
SMART DEXDc UniProtKB/TrEMBL
  HELICc UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt D3Z0M9 ENTREZGENE, UniProtKB/TrEMBL
  E0CXN3_MOUSE UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-03-31 Ddx23  DEAD box helicase 23  Ddx23  DEAD (Asp-Glu-Ala-Asp) box polypeptide 23  Symbol and/or name change 5135510 APPROVED