NHLRC1 (NHL repeat containing E3 ubiquitin protein ligase 1) - Rat Genome Database

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Gene: NHLRC1 (NHL repeat containing E3 ubiquitin protein ligase 1) Chlorocebus sabaeus
Analyze
Symbol: NHLRC1
Name: NHL repeat containing E3 ubiquitin protein ligase 1
RGD ID: 18558213
Description: ENCODES a protein that exhibits metal ion binding (inferred); translation repressor activity (inferred); ubiquitin protein ligase activity (inferred); INVOLVED IN autophagy (ortholog); glycogen biosynthetic process (ortholog); glycogen metabolic process (ortholog); ASSOCIATED WITH epilepsy (ortholog); genetic disease (ortholog); Lafora disease (ortholog); FOUND IN cytosol (inferred); nucleoplasm (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: E3 ubiquitin-protein ligase NHLRC1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11754,017,947 - 54,020,015 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1754,018,703 - 54,019,887 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604418,345,896 - 18,348,172 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
NHLRC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11754,017,947 - 54,020,015 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1754,018,703 - 54,019,887 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604418,345,896 - 18,348,172 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
NHLRC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38618,120,440 - 18,122,677 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl618,120,440 - 18,122,677 (-)EnsemblGRCh38hg38GRCh38
GRCh37618,120,671 - 18,122,908 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36618,228,697 - 18,230,830 (-)NCBINCBI36Build 36hg18NCBI36
Build 34618,228,696 - 18,230,830NCBI
Celera619,358,725 - 19,360,858 (-)NCBICelera
Cytogenetic Map6p22.3NCBI
HuRef618,065,097 - 18,067,230 (-)NCBIHuRef
CHM1_1618,123,324 - 18,125,457 (-)NCBICHM1_1
T2T-CHM13v2.0617,992,610 - 17,994,847 (-)NCBIT2T-CHM13v2.0
Nhlrc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391347,166,033 - 47,168,326 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1347,166,033 - 47,168,326 (-)EnsemblGRCm39 Ensembl
GRCm381347,012,557 - 47,014,850 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1347,012,557 - 47,014,850 (-)EnsemblGRCm38mm10GRCm38
MGSCv371347,107,926 - 47,110,219 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361347,023,530 - 47,025,792 (-)NCBIMGSCv36mm8
Celera1348,097,798 - 48,100,082 (-)NCBICelera
Cytogenetic Map13A5NCBI
cM Map1324.5NCBI
Nhlrc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81717,880,570 - 17,883,411 (+)NCBIGRCr8
mRatBN7.21717,674,303 - 17,677,144 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1717,674,319 - 17,677,148 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1717,559,476 - 17,560,666 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01719,163,332 - 19,164,522 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01717,486,596 - 17,487,786 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01718,059,382 - 18,060,572 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1718,059,382 - 18,060,572 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01719,876,653 - 19,877,843 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41723,726,054 - 23,727,244 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11723,728,893 - 23,730,084 (+)NCBI
Celera1717,384,491 - 17,385,681 (+)NCBICelera
Cytogenetic Map17p14NCBI
Nhlrc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554838,078,796 - 8,079,612 (+)NCBIChiLan1.0ChiLan1.0
NHLRC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2532,779,957 - 32,782,581 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1628,765,169 - 28,767,840 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0617,969,146 - 17,970,962 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1618,321,603 - 18,322,965 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl618,321,728 - 18,322,915 (-)Ensemblpanpan1.1panPan2
NHLRC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13516,920,687 - 16,921,829 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3516,920,687 - 16,921,829 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3516,870,564 - 16,871,751 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03517,027,204 - 17,028,403 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3517,027,204 - 17,028,403 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13516,840,653 - 16,841,840 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03516,897,947 - 16,899,146 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03518,228,843 - 18,230,041 (-)NCBIUU_Cfam_GSD_1.0
Nhlrc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049467,837,346 - 7,838,742 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365523,892,372 - 3,893,559 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365523,891,350 - 3,893,566 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NHLRC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl713,816,246 - 13,817,644 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1713,816,243 - 13,817,644 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2714,558,596 - 14,559,640 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Nhlrc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247568,558,470 - 8,560,610 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium
Low 36 17 60
Below cutoff 3

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_007973597 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACDXN010000012 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCSAT00000019196   ⟹   ENSCSAP00000018616
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl1754,018,703 - 54,019,887 (+)Ensembl
RefSeq Acc Id: XM_007973597   ⟹   XP_007971788
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11754,017,947 - 54,020,015 (+)NCBI
Vero_WHO_p1.0NW_02366604418,345,896 - 18,348,172 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007971788 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000018616.1
Reference Protein Sequences
RefSeq Acc Id: XP_007971788   ⟸   XM_007973597
- UniProtKB: A0A0D9SCM7 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000018616   ⟸   ENSCSAT00000019196


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000019106 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000019196.1 UniProtKB/TrEMBL
Gene3D-CATH 2.120.10.30 UniProtKB/TrEMBL
  3.30.40.10 UniProtKB/TrEMBL
InterPro 6-blade_b-propeller_TolB-like UniProtKB/TrEMBL
  NHL_repeat UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_RING_CS UniProtKB/TrEMBL
KEGG Report csab:103222105 UniProtKB/TrEMBL
NCBI Gene NHLRC1 ENTREZGENE
PANTHER E3 UBIQUITIN-PROTEIN LIGASE NHLRC1 UniProtKB/TrEMBL
  E3 UBIQUITIN-PROTEIN LIGASE NHLRC1-RELATED UniProtKB/TrEMBL
Pfam zf-RING_5 UniProtKB/TrEMBL
PROSITE NHL UniProtKB/TrEMBL
  ZF_RING_1 UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
SMART RING UniProtKB/TrEMBL
Superfamily-SCOP NHL repeat UniProtKB/TrEMBL
  RING/U-box UniProtKB/TrEMBL
UniProt A0A0D9SCM7 ENTREZGENE, UniProtKB/TrEMBL