DKC1 (dyskerin pseudouridine synthase 1) - Rat Genome Database

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Gene: DKC1 (dyskerin pseudouridine synthase 1) Sus scrofa
Analyze
Symbol: DKC1
Name: dyskerin pseudouridine synthase 1
RGD ID: 14199735
Description: ENCODES a protein that exhibits telomerase activity (ortholog); INVOLVED IN positive regulation of cell population proliferation (ortholog); protein localization to Cajal body (ortholog); snoRNA guided rRNA pseudouridine synthesis (ortholog); PARTICIPATES IN ribosome biogenesis pathway; ASSOCIATED WITH adrenoleukodystrophy (ortholog); anemia (ortholog); aplastic anemia (ortholog); FOUND IN box H/ACA snoRNP complex (ortholog); Cajal body (ortholog); nucleoplasm (ortholog); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: H/ACA ribonucleoprotein complex subunit 4; H/ACA ribonucleoprotein complex subunit DKC1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX125,218,923 - 125,229,525 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X125,218,928 - 125,228,881 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X143,254,306 - 143,264,249 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:14681463   PMID:17145712   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
DKC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX125,218,923 - 125,229,525 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X125,218,928 - 125,228,881 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X143,254,306 - 143,264,249 (-)NCBISscrofa10.2Sscrofa10.2susScr3
DKC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X154,762,864 - 154,777,689 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX154,762,742 - 154,777,689 (+)EnsemblGRCh38hg38GRCh38
GRCh37X153,991,139 - 154,005,964 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X153,644,344 - 153,659,154 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X153,554,853 - 153,569,664NCBI
CeleraX154,149,596 - 154,164,527 (+)NCBICelera
Cytogenetic MapXq28NCBI
HuRefX142,534,593 - 142,549,324 (+)NCBIHuRef
CHM1_1X153,902,723 - 153,917,646 (+)NCBICHM1_1
T2T-CHM13v2.0X152,999,274 - 153,014,101 (+)NCBIT2T-CHM13v2.0
Dkc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X74,139,460 - 74,153,382 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX74,139,460 - 74,153,383 (+)EnsemblGRCm39 Ensembl
GRCm38X75,095,854 - 75,109,776 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX75,095,854 - 75,109,777 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X72,341,193 - 72,355,115 (+)NCBIGRCm37MGSCv37mm9NCBIm37
CeleraX66,500,704 - 66,514,600 (+)NCBICelera
Cytogenetic MapXA7.3NCBI
cM MapX38.15NCBI
Dkc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X157,751,651 - 157,757,796 (+)NCBIGRCr8
UTH_Rnor_SHR_UtxY2,037,843 - 2,053,706 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X158,304,360 - 158,320,224 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X155,976,554 - 155,992,422 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X155,844,914 - 155,862,363 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX155,844,857 - 155,862,475 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01151,564,354 - 151,578,635 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1135,295,501 - 135,310,658 (-)ENTREZGENECelera
Cytogenetic MapX;YNCBI
Dkc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955594847,815 - 856,510 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955594846,997 - 857,255 (-)NCBIChiLan1.0ChiLan1.0
DKC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X154,742,073 - 154,756,376 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X154,745,681 - 154,759,888 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X144,243,493 - 144,257,419 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X154,084,412 - 154,098,475 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX154,084,412 - 154,098,475 (+)Ensemblpanpan1.1panPan2
DKC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X122,838,787 - 122,850,870 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX122,838,645 - 122,850,884 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX107,832,003 - 107,844,116 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X125,964,983 - 125,977,098 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX125,965,006 - 125,977,095 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X121,712,979 - 121,725,092 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X124,236,220 - 124,248,333 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X123,929,308 - 123,941,420 (+)NCBIUU_Cfam_GSD_1.0
Dkc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X119,776,274 - 119,785,590 (+)NCBIHiC_Itri_2
SpeTri2.0NW_004936927134,770 - 144,057 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DKC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X129,015,883 - 129,029,741 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX129,016,046 - 129,030,001 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606566,994,088 - 67,007,910 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Dkc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624963469,408 - 479,207 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624963468,673 - 479,317 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in DKC1
138 total Variants

Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
hemolymphoid system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
10 4 23 3 2 5 14 12 23 3 6 3

Sequence


Ensembl Acc Id: ENSSSCT00000014017   ⟹   ENSSSCP00000013633
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 EnsemblX125,218,923 - 125,229,525 (+)Ensembl
Ensembl Acc Id: ENSSSCT00000033158   ⟹   ENSSSCP00000029318
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 EnsemblX125,218,923 - 125,229,525 (+)Ensembl
Ensembl Acc Id: ENSSSCT00000041484   ⟹   ENSSSCP00000054612
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 EnsemblX125,218,923 - 125,228,859 (+)Ensembl
Ensembl Acc Id: ENSSSCT00000043641   ⟹   ENSSSCP00000041820
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 EnsemblX125,218,940 - 125,229,525 (+)Ensembl
RefSeq Acc Id: NM_001142668   ⟹   NP_001136140
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1X125,218,928 - 125,228,881 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001136140 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein ACJ53932 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSSCP00000013633
  ENSSSCP00000013633.3
  ENSSSCP00000029318.3
  ENSSSCP00000041820.3
  ENSSSCP00070011172.1
  ENSSSCP00070011180.1
  ENSSSCP00070011196.1
RefSeq Acc Id: NP_001136140   ⟸   NM_001142668
- UniProtKB: B7TJ11 (UniProtKB/TrEMBL),   A0A4X1T866 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSSSCP00000054612   ⟸   ENSSSCT00000041484
Ensembl Acc Id: ENSSSCP00000041820   ⟸   ENSSSCT00000043641
Ensembl Acc Id: ENSSSCP00000013633   ⟸   ENSSSCT00000014017
Ensembl Acc Id: ENSSSCP00000029318   ⟸   ENSSSCT00000033158
Protein Domains
Dyskerin-like   PUA


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000012823 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00070007048 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000014017 ENTREZGENE
  ENSSSCT00000014017.6 UniProtKB/TrEMBL
  ENSSSCT00000033158.4 UniProtKB/TrEMBL
  ENSSSCT00000043641.3 UniProtKB/TrEMBL
  ENSSSCT00070013549.1 UniProtKB/TrEMBL
  ENSSSCT00070013556.1 UniProtKB/TrEMBL
  ENSSSCT00070013578.1 UniProtKB/TrEMBL
Gene3D-CATH 2.30.130.10 UniProtKB/TrEMBL
  Pseudouridine synthase UniProtKB/TrEMBL
InterPro Dyskerin-like UniProtKB/TrEMBL
  PsdUridine_synth_cat_dom_sf UniProtKB/TrEMBL
  PsdUridine_synth_N UniProtKB/TrEMBL
  PUA UniProtKB/TrEMBL
  PUA-like_sf UniProtKB/TrEMBL
  PUA_sf UniProtKB/TrEMBL
  tRNA_PsdUridine_synth_B_fam UniProtKB/TrEMBL
  TruB_C UniProtKB/TrEMBL
  Uncharacterised_CHP00451 UniProtKB/TrEMBL
KEGG Report ssc:100216430 UniProtKB/TrEMBL
NCBI Gene DKC1 ENTREZGENE
PANTHER H/ACA RIBONUCLEOPROTEIN COMPLEX SUBUNIT DKC1 UniProtKB/TrEMBL
  PTHR23127 UniProtKB/TrEMBL
Pfam DKCLD UniProtKB/TrEMBL
  PUA UniProtKB/TrEMBL
  TruB_C_2 UniProtKB/TrEMBL
  TruB_N UniProtKB/TrEMBL
PROSITE PUA UniProtKB/TrEMBL
SMART DKCLD UniProtKB/TrEMBL
  PUA UniProtKB/TrEMBL
Superfamily-SCOP SSF55120 UniProtKB/TrEMBL
  SSF88697 UniProtKB/TrEMBL
UniProt A0A287ADD4_PIG UniProtKB/TrEMBL
  A0A4X1T731_PIG UniProtKB/TrEMBL
  A0A4X1T866 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1T8Q3_PIG UniProtKB/TrEMBL
  B7TJ11 ENTREZGENE, UniProtKB/TrEMBL
  F1RZ24_PIG UniProtKB/TrEMBL
  K7GN67_PIG UniProtKB/TrEMBL
VGNC ID VGNC:87320 ENTREZGENE