Nudt16 (nudix hydrolase 16) - Rat Genome Database

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Gene: Nudt16 (nudix hydrolase 16) Rattus norvegicus
Analyze
Symbol: Nudt16
Name: nudix hydrolase 16
RGD ID: 1311387
Description: Predicted to enable several functions, including RNA binding activity; metal ion binding activity; and pyrophosphatase activity. Predicted to be involved in RNA metabolic process and positive regulation of cell cycle process. Predicted to act upstream of or within chromosome organization and dITP catabolic process. Predicted to be located in cytoplasm; nucleolus; and nucleoplasm. Predicted to be active in nucleus. Orthologous to human NUDT16 (nudix hydrolase 16); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC363129; nudix (nucleoside diphosphate linked moiety X)-type motif 16; RGD1311387; similar to RIKEN cDNA 2310041H06; U8 snoRNA-decapping enzyme
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88114,618,706 - 114,620,761 (-)NCBIGRCr8
mRatBN7.28105,739,927 - 105,741,982 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8105,739,623 - 105,741,998 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8111,391,367 - 111,393,434 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08109,590,625 - 109,592,692 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08107,433,297 - 107,435,364 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08113,673,069 - 113,675,124 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8113,672,758 - 113,675,128 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08113,059,242 - 113,061,297 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48110,199,789 - 110,201,844 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18110,219,857 - 110,221,366 (-)NCBI
Celera8105,096,287 - 105,098,342 (-)NCBICelera
Cytogenetic Map8q32NCBI
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
cytoplasm  (ISO)
nucleolus  (ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,ISO)

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:15053875   PMID:17567574   PMID:18820299   PMID:20081199   PMID:20385596   PMID:21070968   PMID:21337011   PMID:21630459   PMID:26121039   PMID:29483298  


Genomics

Comparative Map Data
Nudt16
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88114,618,706 - 114,620,761 (-)NCBIGRCr8
mRatBN7.28105,739,927 - 105,741,982 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8105,739,623 - 105,741,998 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8111,391,367 - 111,393,434 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08109,590,625 - 109,592,692 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08107,433,297 - 107,435,364 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08113,673,069 - 113,675,124 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8113,672,758 - 113,675,128 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08113,059,242 - 113,061,297 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48110,199,789 - 110,201,844 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18110,219,857 - 110,221,366 (-)NCBI
Celera8105,096,287 - 105,098,342 (-)NCBICelera
Cytogenetic Map8q32NCBI
NUDT16
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383131,381,671 - 131,388,830 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3131,381,671 - 131,388,830 (+)EnsemblGRCh38hg38GRCh38
GRCh373131,100,515 - 131,107,674 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363132,583,397 - 132,587,619 (+)NCBINCBI36Build 36hg18NCBI36
Build 343132,583,404 - 132,587,627NCBI
Celera3129,526,187 - 129,533,346 (+)NCBICelera
Cytogenetic Map3q22.1NCBI
HuRef3128,485,333 - 128,492,492 (+)NCBIHuRef
CHM1_13131,064,106 - 131,071,265 (+)NCBICHM1_1
T2T-CHM13v2.03134,125,463 - 134,132,622 (+)NCBIT2T-CHM13v2.0
Nudt16
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399105,006,531 - 105,010,332 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9105,006,102 - 105,009,023 (-)EnsemblGRCm39 Ensembl
GRCm389105,129,332 - 105,133,133 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9105,128,903 - 105,131,824 (-)EnsemblGRCm38mm10GRCm38
MGSCv379105,031,668 - 105,034,135 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369104,987,773 - 104,989,905 (-)NCBIMGSCv36mm8
Celera9104,714,940 - 104,717,404 (-)NCBICelera
Cytogenetic Map9F1NCBI
cM Map956.61NCBI
Nudt16
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555017,083,068 - 7,085,505 (-)NCBIChiLan1.0ChiLan1.0
NUDT16
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22129,340,543 - 129,344,991 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13129,345,269 - 129,352,341 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03128,466,119 - 128,473,186 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13135,788,354 - 135,795,417 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3135,788,354 - 135,790,038 (+)Ensemblpanpan1.1panPan2
NUDT16
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12328,498,730 - 28,500,998 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2328,498,652 - 28,499,998 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2328,472,997 - 28,475,571 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02329,005,996 - 29,008,575 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2329,006,001 - 29,008,575 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12328,701,498 - 28,704,040 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02328,763,058 - 28,765,630 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02329,012,791 - 29,015,352 (+)NCBIUU_Cfam_GSD_1.0
LOC101965734
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560268,064,762 - 68,067,873 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365294,825,189 - 4,826,886 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365294,825,277 - 4,827,011 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NUDT16
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl131,125,183 - 1,128,041 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1131,125,180 - 1,128,036 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
NUDT16
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11558,847,418 - 58,849,133 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1558,847,560 - 58,849,246 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604131,857,701 - 31,864,774 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Nudt16
13 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:96
Count of miRNA genes:84
Interacting mature miRNAs:88
Transcripts:ENSRNOT00000017318
Prediction methods:Microtar, Miranda, Rnahybrid
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)873473045118473045Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)871888757116888757Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)871888757116888757Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088626Rat
1358912Bw51Body weight QTL 512.95body mass (VT:0001259)body weight (CMO:0000012)851351728107062046Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat
631217Activ1Activity QTL 115.9voluntary movement trait (VT:0003491)number of photobeam interruptions in an experimental apparatus (CMO:0001517)8102370617108923645Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)889265192114019816Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)871888757116888757Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)871888757116888757Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000017318   ⟹   ENSRNOP00000017318
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8105,739,623 - 105,741,998 (-)Ensembl
Rnor_6.0 Ensembl8113,672,758 - 113,675,128 (-)Ensembl
RefSeq Acc Id: NM_001127554   ⟹   NP_001121026
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88114,618,706 - 114,620,761 (-)NCBI
mRatBN7.28105,739,927 - 105,741,982 (-)NCBI
Rnor_6.08113,673,069 - 113,675,124 (-)NCBI
Rnor_5.08113,059,242 - 113,061,297 (-)NCBI
RGSC_v3.48110,199,789 - 110,201,844 (-)RGD
Celera8105,096,287 - 105,098,342 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001121026 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI66915 (Get FASTA)   NCBI Sequence Viewer  
  EDL77350 (Get FASTA)   NCBI Sequence Viewer  
  EDL77351 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000017318.4
RefSeq Acc Id: NP_001121026   ⟸   NM_001127554
- UniProtKB: B2RYV2 (UniProtKB/TrEMBL),   A6I2M6 (UniProtKB/TrEMBL),   G3V7P6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000017318   ⟸   ENSRNOT00000017318
Protein Domains
Nudix hydrolase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V7P6-F1-model_v2 AlphaFold G3V7P6 1-195 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13696240
Promoter ID:EPDNEW_R6764
Type:single initiation site
Name:Nudt16_1
Description:nudix hydrolase 16
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08113,675,144 - 113,675,204EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311387 AgrOrtholog
BioCyc Gene G2FUF-29279 BioCyc
Ensembl Genes ENSRNOG00000012962 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000017318.6 UniProtKB/TrEMBL
Gene3D-CATH Nucleoside Triphosphate Pyrophosphohydrolase UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6917859 IMAGE-MGC_LOAD
InterPro NUDIX_hydrolase_dom UniProtKB/TrEMBL
  NUDIX_hydrolase_dom-like UniProtKB/TrEMBL
  Nudix_hydrolase_NUDT16_sf UniProtKB/TrEMBL
KEGG Report rno:363129 UniProtKB/TrEMBL
MGC_CLONE MGC:188901 IMAGE-MGC_LOAD
NCBI Gene 363129 ENTREZGENE
PANTHER NUDIX T16 FAMILY MEMBER UniProtKB/TrEMBL
  U8 SNORNA-DECAPPING ENZYME UniProtKB/TrEMBL
Pfam Nudt16-like UniProtKB/TrEMBL
PhenoGen Nudt16 PhenoGen
PROSITE NUDIX UniProtKB/TrEMBL
RatGTEx ENSRNOG00000012962 RatGTEx
Superfamily-SCOP NUDIX_hydrolase UniProtKB/TrEMBL
UniProt A6I2M6 ENTREZGENE, UniProtKB/TrEMBL
  B2RYV2 ENTREZGENE, UniProtKB/TrEMBL
  G3V7P6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-19 Nudt16  nudix hydrolase 16  Nudt16  nudix (nucleoside diphosphate linked moiety X)-type motif 16  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Nudt16  nudix (nucleoside diphosphate linked moiety X)-type motif 16   Nudt16_predicted  nudix (nucleoside diphosphate linked moiety X)-type motif 16 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Nudt16_predicted  nudix (nucleoside diphosphate linked moiety X)-type motif 16 (predicted)  RGD1311387_predicted  similar to RIKEN cDNA 2310041H06 (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-20 RGD1311387_predicted  similar to RIKEN cDNA 2310041H06 (predicted)  LOC363129_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC363129_predicted  similar to RIKEN cDNA 2310041H06 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL