NT5DC1 (5'-nucleotidase domain containing 1) - Rat Genome Database

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Gene: NT5DC1 (5'-nucleotidase domain containing 1) Canis lupus familiaris
Analyze
Symbol: NT5DC1
Name: 5'-nucleotidase domain containing 1
RGD ID: 12205870
Description: ENCODES a protein that exhibits 5'-nucleotidase activity (inferred); hydrolase activity (inferred); metal ion binding (inferred); ASSOCIATED WITH body dysmorphic disorder (ortholog); congenital disorder of glycosylation Iaa (ortholog); genetic disease (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: 5'-nucleotidase domain-containing protein 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11271,790,973 - 71,909,109 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1271,791,748 - 71,907,498 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1271,550,833 - 71,670,015 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01272,672,270 - 72,791,171 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1272,672,277 - 72,791,718 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11272,024,246 - 72,143,173 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01271,866,027 - 71,984,731 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01272,254,898 - 72,373,702 (+)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
NT5DC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11271,790,973 - 71,909,109 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1271,791,748 - 71,907,498 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1271,550,833 - 71,670,015 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01272,672,270 - 72,791,171 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1272,672,277 - 72,791,718 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11272,024,246 - 72,143,173 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01271,866,027 - 71,984,731 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01272,254,898 - 72,373,702 (+)NCBIUU_Cfam_GSD_1.0
NT5DC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386116,100,853 - 116,249,497 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6116,100,851 - 116,249,497 (+)EnsemblGRCh38hg38GRCh38
GRCh376116,422,016 - 116,570,660 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366116,528,692 - 116,673,546 (+)NCBINCBI36Build 36hg18NCBI36
Build 346116,528,691 - 116,673,545NCBI
Celera6117,165,022 - 117,309,890 (+)NCBICelera
Cytogenetic Map6q22.1NCBI
HuRef6114,002,198 - 114,147,046 (+)NCBIHuRef
CHM1_16116,685,819 - 116,830,746 (+)NCBICHM1_1
T2T-CHM13v2.06117,284,838 - 117,433,477 (+)NCBIT2T-CHM13v2.0
Nt5dc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391034,179,605 - 34,294,585 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1034,164,284 - 34,294,548 (-)EnsemblGRCm39 Ensembl
GRCm381034,303,609 - 34,418,589 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1034,288,288 - 34,418,552 (-)EnsemblGRCm38mm10GRCm38
MGSCv371034,023,418 - 34,138,334 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361033,993,225 - 34,107,944 (-)NCBIMGSCv36mm8
Celera1035,213,268 - 35,327,093 (-)NCBICelera
Cytogenetic Map10B1NCBI
cM Map1018.85NCBI
Nt5dc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82039,660,707 - 39,763,647 (-)NCBIGRCr8
mRatBN7.22038,105,677 - 38,208,613 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2038,105,678 - 38,208,591 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2039,822,723 - 39,925,595 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02039,481,840 - 39,584,723 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02040,201,663 - 40,304,596 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02041,106,990 - 41,209,765 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2041,106,991 - 41,209,728 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02042,836,806 - 42,938,666 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42038,646,201 - 38,750,613 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12038,670,228 - 38,776,528 (-)NCBI
Celera2038,888,068 - 38,989,368 (-)NCBICelera
Cytogenetic Map20q12NCBI
Nt5dc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955526568,307 - 604,941 (-)NCBIChiLan1.0ChiLan1.0
NT5DC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25136,109,009 - 136,253,828 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16134,001,995 - 134,146,804 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06113,903,473 - 114,051,784 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16118,049,363 - 118,194,017 (+)NCBIpanpan1.1PanPan1.1panPan2
LOC101970611
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946107,080,662 - 107,116,124 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936824723,160 - 839,436 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936824805,647 - 841,113 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NT5DC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl181,746,022 - 81,881,113 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1181,745,918 - 81,880,691 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2191,861,465 - 91,997,370 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NT5DC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11357,568,061 - 57,715,702 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1357,569,744 - 57,715,604 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604029,889,313 - 30,038,021 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nt5dc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248562,246,730 - 2,389,020 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in NT5DC1
2582 total Variants

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 reproductive system respiratory system adipose tissue
High
Medium 5 5 22 6 6 6 6 6 12 2 10 5
Low 6 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000006504   ⟹   ENSCAFP00000006024
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1271,791,748 - 71,907,498 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000084085   ⟹   ENSCAFP00000050390
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1271,794,190 - 71,907,498 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845037305   ⟹   ENSCAFP00845029220
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1272,672,277 - 72,791,718 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845037425   ⟹   ENSCAFP00845029317
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1272,676,986 - 72,791,718 (+)Ensembl
RefSeq Acc Id: XM_038492695   ⟹   XP_038348623
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11272,024,246 - 72,143,173 (+)NCBI
RefSeq Acc Id: XM_038492696   ⟹   XP_038348624
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11272,024,246 - 72,143,173 (+)NCBI
RefSeq Acc Id: XM_038555012   ⟹   XP_038410940
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01272,254,898 - 72,373,702 (+)NCBI
RefSeq Acc Id: XM_038618892   ⟹   XP_038474820
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01271,866,027 - 71,984,731 (+)NCBI
RefSeq Acc Id: XM_038618893   ⟹   XP_038474821
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01271,866,027 - 71,984,731 (+)NCBI
RefSeq Acc Id: XM_038671746   ⟹   XP_038527674
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha1271,550,833 - 71,670,015 (+)NCBI
RefSeq Acc Id: XM_038671756   ⟹   XP_038527684
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha1271,550,833 - 71,670,015 (+)NCBI
RefSeq Acc Id: XM_038684448   ⟹   XP_038540376
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01272,672,270 - 72,791,171 (+)NCBI
RefSeq Acc Id: XM_038684449   ⟹   XP_038540377
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01272,672,270 - 72,791,171 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSCAFP00000050390   ⟸   ENSCAFT00000084085
RefSeq Acc Id: ENSCAFP00000006024   ⟸   ENSCAFT00000006504
RefSeq Acc Id: XP_038348623   ⟸   XM_038492695
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038348624   ⟸   XM_038492696
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038474820   ⟸   XM_038618892
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038474821   ⟸   XM_038618893
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038540376   ⟸   XM_038684448
- Peptide Label: isoform X1
- UniProtKB: A0A8C0S8E5 (UniProtKB/TrEMBL),   A0A8I3PAA2 (UniProtKB/TrEMBL),   A0A8C0M8I3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038540377   ⟸   XM_038684449
- Peptide Label: isoform X2
- UniProtKB: A0A8C0M8I3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038527674   ⟸   XM_038671746
- Peptide Label: isoform X1
- UniProtKB: A0A8C0S8E5 (UniProtKB/TrEMBL),   A0A8I3PAA2 (UniProtKB/TrEMBL),   A0A8C0M8I3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038527684   ⟸   XM_038671756
- Peptide Label: isoform X2
- UniProtKB: A0A8C0M8I3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038410940   ⟸   XM_038555012
- Peptide Label: isoform X1
- UniProtKB: A0A8C0M8I3 (UniProtKB/TrEMBL),   A0A8C0S8E5 (UniProtKB/TrEMBL),   A0A8I3PAA2 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845029220   ⟸   ENSCAFT00845037305
RefSeq Acc Id: ENSCAFP00845029317   ⟸   ENSCAFT00845037425


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000004060 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030003867 UniProtKB/TrEMBL
  ENSCAFG00040010922 UniProtKB/TrEMBL
  ENSCAFG00845021137 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000006504.5 UniProtKB/TrEMBL
  ENSCAFT00000084085.2 UniProtKB/TrEMBL
  ENSCAFT00030007233.1 UniProtKB/TrEMBL
  ENSCAFT00040020173.1 UniProtKB/TrEMBL
  ENSCAFT00845037305 ENTREZGENE
  ENSCAFT00845037305.1 UniProtKB/TrEMBL
  ENSCAFT00845037425.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.1000 UniProtKB/TrEMBL
InterPro HAD-like_sf UniProtKB/TrEMBL
  HAD-SF_hydro_IG_5-nucl UniProtKB/TrEMBL
  HAD_sf UniProtKB/TrEMBL
NCBI Gene NT5DC1 ENTREZGENE
PANTHER 5'-NUCLEOTIDASE DOMAIN-CONTAINING PROTEIN 1 UniProtKB/TrEMBL
  PTHR12103 UniProtKB/TrEMBL
Pfam 5_nucleotid UniProtKB/TrEMBL
Superfamily-SCOP SSF56784 UniProtKB/TrEMBL
UniProt A0A8C0M8I3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0S8E5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3PAA2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3PFM0_CANLF UniProtKB/TrEMBL
  A0A8P0T322_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:54336 ENTREZGENE