Nudt16l1 (nudix hydrolase 16 like 1) - Rat Genome Database

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Gene: Nudt16l1 (nudix hydrolase 16 like 1) Rattus norvegicus
Analyze
Symbol: Nudt16l1
Name: nudix hydrolase 16 like 1
RGD ID: 1561451
Description: Predicted to enable snoRNA binding activity. Predicted to be involved in negative regulation of double-strand break repair via nonhomologous end joining. Predicted to be active in nucleus. Orthologous to human NUDT16L1 (nudix hydrolase 16 like 1); PARTICIPATES IN syndecan signaling pathway; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; alpha-Zearalanol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC497867; nudix (nucleoside diphosphate linked moiety X)-type motif 16-like 1; protein syndesmos; similar to 1110001K21Rik protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81011,142,626 - 11,144,542 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1011,142,627 - 11,144,764 (-)EnsemblGRCr8
mRatBN7.21010,636,174 - 10,638,090 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1010,636,174 - 10,688,370 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1015,344,590 - 15,346,505 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01014,833,407 - 14,835,322 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01010,502,538 - 10,504,454 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01010,829,866 - 10,831,782 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1010,829,867 - 10,831,782 (-)Ensemblrn6Rnor6.0
Rnor_5.0109,596,796 - 9,598,712 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41010,753,152 - 10,755,068 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera109,600,384 - 9,602,300 (-)NCBICelera
Cytogenetic Map10q12NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleus  (IBA,IEA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
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. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:18820299   PMID:21070968   PMID:22681889   PMID:28241136  


Genomics

Comparative Map Data
Nudt16l1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81011,142,626 - 11,144,542 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1011,142,627 - 11,144,764 (-)EnsemblGRCr8
mRatBN7.21010,636,174 - 10,638,090 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1010,636,174 - 10,688,370 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1015,344,590 - 15,346,505 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01014,833,407 - 14,835,322 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01010,502,538 - 10,504,454 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01010,829,866 - 10,831,782 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1010,829,867 - 10,831,782 (-)Ensemblrn6Rnor6.0
Rnor_5.0109,596,796 - 9,598,712 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41010,753,152 - 10,755,068 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera109,600,384 - 9,602,300 (-)NCBICelera
Cytogenetic Map10q12NCBI
NUDT16L1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38164,693,562 - 4,695,859 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl164,693,562 - 4,695,861 (+)Ensemblhg38GRCh38
GRCh37164,743,563 - 4,745,860 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36164,683,717 - 4,685,846 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34164,683,716 - 4,685,846NCBI
Celera164,952,472 - 4,954,638 (+)NCBICelera
Cytogenetic Map16p13.3NCBI
HuRef164,710,213 - 4,712,379 (+)NCBIHuRef
CHM1_1164,744,475 - 4,746,641 (+)NCBICHM1_1
T2T-CHM13v2.0164,723,014 - 4,725,311 (+)NCBIT2T-CHM13v2.0
Nudt16l1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39164,756,975 - 4,758,892 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl164,756,625 - 4,758,896 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38164,939,111 - 4,941,028 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl164,938,761 - 4,941,032 (+)Ensemblmm10GRCm38
MGSCv37164,939,111 - 4,941,025 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36164,854,339 - 4,856,253 (+)NCBIMGSCv36mm8
Celera165,570,451 - 5,572,360 (+)NCBICelera
Cytogenetic Map16A1NCBI
cM Map162.48NCBI
Nudt16l1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544212,775,630 - 12,777,549 (-)Ensembl
ChiLan1.0NW_00495544212,761,962 - 12,777,549 (-)NCBIChiLan1.0ChiLan1.0
NUDT16L1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2185,222,277 - 5,224,563 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1169,012,548 - 9,014,709 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0163,615,841 - 3,620,526 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1164,785,313 - 4,787,445 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl164,785,358 - 4,786,775 (+)EnsemblpanPan2panpan1.1
NUDT16L1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1636,711,351 - 36,713,931 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl636,711,671 - 36,713,896 (-)NCBIcanFam3CanFam3.1
CanFam3.1 Ensembl636,711,671 - 36,713,896 (-)EnsemblcanFam3CanFam3.1
ROS_Cfam_1.0636,914,416 - 36,916,931 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl636,914,416 - 36,916,933 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1636,708,267 - 36,710,792 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0636,601,116 - 36,603,648 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0637,003,796 - 37,006,314 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
NUDT16L1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl337,684,207 - 37,693,652 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1337,684,206 - 37,694,653 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2338,747,871 - 38,753,316 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NUDT16L1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.154,372,989 - 4,377,679 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl54,375,517 - 4,377,032 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366606826,287,633 - 26,290,064 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nudt16l1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248242,476,144 - 2,478,650 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Nudt16l1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1916,965,030 - 16,967,138 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Nudt16l1
16 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:92
Count of miRNA genes:76
Interacting mature miRNAs:85
Transcripts:ENSRNOT00000004314
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10666111835509383Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10666092373950353Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10589381150893811Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10125055464349221Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10589381150893811Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10687714251877142Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135730538Rat
7387235Uae41Urinary albumin excretion QTL 415.260.1874urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)10130004247Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10686461896620484Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1092219745922197Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)10210370847103708Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10589381150893811Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10117749933Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138832698Rat

Markers in Region
RH134454  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81011,145,439 - 11,145,622 (+)Marker Load Pipeline
mRatBN7.21010,638,987 - 10,639,170 (+)MAPPERmRatBN7.2
Rnor_6.01010,832,680 - 10,832,862NCBIRnor6.0
Rnor_5.0109,599,610 - 9,599,792UniSTSRnor5.0
RGSC_v3.41010,755,966 - 10,756,148UniSTSRGSC3.4
Celera109,603,198 - 9,603,380UniSTS
Cytogenetic Map10q12UniSTS


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 164 91 90 59 92 59 6 356 192 11 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000004314   ⟹   ENSRNOP00000004314
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1011,143,159 - 11,144,559 (-)Ensembl
mRatBN7.2 Ensembl1010,636,707 - 10,638,107 (-)Ensembl
Rnor_6.0 Ensembl1010,829,867 - 10,831,782 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000112556   ⟹   ENSRNOP00000085011
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1011,142,627 - 11,144,764 (-)Ensembl
mRatBN7.2 Ensembl1010,636,174 - 10,688,370 (-)Ensembl
RefSeq Acc Id: NM_001100782   ⟹   NP_001094252
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81011,142,626 - 11,144,542 (-)NCBI
mRatBN7.21010,636,174 - 10,638,090 (-)NCBI
Rnor_6.01010,829,866 - 10,831,782 (-)NCBI
Rnor_5.0109,596,796 - 9,598,712 (-)NCBI
RGSC_v3.41010,753,152 - 10,755,068 (-)RGD
Celera109,600,384 - 9,602,300 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001094252 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI05820 (Get FASTA)   NCBI Sequence Viewer  
  AAI58815 (Get FASTA)   NCBI Sequence Viewer  
  EDL96276 (Get FASTA)   NCBI Sequence Viewer  
  EDL96277 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000004314.5
  ENSRNOP00000085011
  ENSRNOP00000085011.1
RefSeq Acc Id: NP_001094252   ⟸   NM_001100782
- UniProtKB: B0BNG7 (UniProtKB/TrEMBL),   Q3B8R8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000004314   ⟸   ENSRNOT00000004314
Ensembl Acc Id: ENSRNOP00000085011   ⟸   ENSRNOT00000112556

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B0BNG7-F1-model_v2 AlphaFold B0BNG7 1-211 view protein structure

Transcriptome

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

Promoters
RGD ID:13696969
Promoter ID:EPDNEW_R7494
Type:multiple initiation site
Name:Nudt16l1_1
Description:nudix hydrolase 16 like 1
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_6.01010,831,791 - 10,831,851EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1561451 AgrOrtholog
BioCyc Gene G2FUF-26049 BioCyc
Ensembl Genes ENSRNOG00000003224 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004314.8 UniProtKB/TrEMBL
  ENSRNOT00000112556 ENTREZGENE
  ENSRNOT00000112556.2 UniProtKB/TrEMBL
Gene3D-CATH Nucleoside Triphosphate Pyrophosphohydrolase UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7369122 IMAGE-MGC_LOAD
  IMAGE:7371601 IMAGE-MGC_LOAD
InterPro NUDIX_hydrolase_dom-like UniProtKB/TrEMBL
  NudT16 UniProtKB/TrEMBL
KEGG Report rno:497867 UniProtKB/TrEMBL
MGC_CLONE MGC:125174 IMAGE-MGC_LOAD
  MGC:188252 IMAGE-MGC_LOAD
NCBI Gene 497867 ENTREZGENE
PANTHER NUDIX T16 FAMILY MEMBER UniProtKB/TrEMBL
  TUDOR-INTERACTING REPAIR REGULATOR PROTEIN UniProtKB/TrEMBL
Pfam Nudt16-like UniProtKB/TrEMBL
PhenoGen Nudt16l1 PhenoGen
RatGTEx ENSRNOG00000003224 RatGTEx
Superfamily-SCOP NUDIX_hydrolase UniProtKB/TrEMBL
UniProt A0A8I6A320_RAT UniProtKB/TrEMBL
  B0BNG7 ENTREZGENE, UniProtKB/TrEMBL
  F7FHG5_RAT UniProtKB/TrEMBL
  Q3B8R8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-10 Nudt16l1  nudix hydrolase 16 like 1  Nudt16l1  nudix (nucleoside diphosphate linked moiety X)-type motif 16-like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 Nudt16l1  nudix (nucleoside diphosphate linked moiety X)-type motif 16-like 1  LOC497867  similar to 1110001K21Rik protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC497867  similar to 1110001K21Rik protein      Symbol and Name status set to provisional 70820 PROVISIONAL