SPOCD1 (SPOC domain containing 1) - Rat Genome Database

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Gene: SPOCD1 (SPOC domain containing 1) Chlorocebus sabaeus
Analyze
Symbol: SPOCD1
Name: SPOC domain containing 1
RGD ID: 18356131
Description: ENCODES a protein that exhibits protein-macromolecule adaptor activity (ortholog); INVOLVED IN gene silencing by piRNA-directed DNA methylation (ortholog); spermatogenesis (ortholog); transposable element silencing by piRNA-mediated DNA methylation (ortholog); ASSOCIATED WITH spermatogenic failure 57 (ortholog); FOUND IN nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: SPOC domain-containing protein 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120101,052,445 - 101,080,826 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20101,052,823 - 101,080,648 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603315,610,820 - 15,638,954 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
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

Cellular Component
nucleus  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
SPOCD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120101,052,445 - 101,080,826 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20101,052,823 - 101,080,648 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603315,610,820 - 15,638,954 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
SPOCD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38131,790,422 - 31,816,022 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl131,790,422 - 31,816,022 (-)EnsemblGRCh38hg38GRCh38
GRCh37132,256,023 - 32,281,623 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36132,028,612 - 32,054,167 (-)NCBINCBI36Build 36hg18NCBI36
Build 34131,925,117 - 31,950,673NCBI
Celera130,525,263 - 30,551,501 (-)NCBICelera
Cytogenetic Map1p35.2NCBI
HuRef130,373,146 - 30,398,177 (-)NCBIHuRef
CHM1_1132,371,716 - 32,397,303 (-)NCBICHM1_1
T2T-CHM13v2.0131,648,071 - 31,674,002 (-)NCBIT2T-CHM13v2.0
Spocd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394129,822,560 - 129,850,908 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4129,823,042 - 129,850,908 (+)EnsemblGRCm39 Ensembl
GRCm384129,928,767 - 129,957,115 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4129,929,249 - 129,957,115 (+)EnsemblGRCm38mm10GRCm38
MGSCv374129,624,974 - 129,634,237 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364129,449,851 - 129,474,477 (+)NCBIMGSCv36mm8
Celera4128,254,853 - 128,291,833 (+)NCBICelera
Cytogenetic Map4D2.2NCBI
cM Map463.43NCBI
Spocd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85147,573,460 - 147,581,165 (+)NCBIGRCr8
mRatBN7.25142,288,822 - 142,297,113 (+)NCBImRatBN7.2mRatBN7.2
Rnor_6.05148,138,309 - 148,166,567 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.05151,863,962 - 151,886,106 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45148,970,198 - 148,979,672 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera5140,738,589 - 140,766,618 (+)NCBICelera
Cytogenetic Map5q36NCBI
Spocd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495545210,192,076 - 10,214,914 (-)NCBIChiLan1.0ChiLan1.0
SPOCD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21195,011,449 - 195,039,381 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11194,133,173 - 194,161,073 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0131,074,169 - 31,100,378 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1132,091,296 - 32,116,993 (-)NCBIpanpan1.1PanPan1.1panPan2
SPOCD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1269,254,343 - 69,326,588 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl269,289,328 - 69,326,595 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha265,834,359 - 65,906,031 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0269,820,558 - 69,892,087 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1266,656,573 - 66,728,022 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0267,652,653 - 67,724,147 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0268,652,370 - 68,723,679 (+)NCBIUU_Cfam_GSD_1.0
LOC101963659
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505849,066,533 - 49,089,586 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493647414,894,564 - 14,918,088 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SPOCD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl688,323,080 - 88,349,963 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1688,323,119 - 88,349,194 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2682,187,353 - 82,211,609 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Spocd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476415,025,755 - 15,052,718 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression

ectoderm
endocrine system
hemolymphoid system
mesenchyme
mesoderm
nervous system
reproductive system
74 34 19 33 33 60 20

Sequence


Ensembl Acc Id: ENSCSAT00000017492   ⟹   ENSCSAP00000016972
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl20101,052,823 - 101,080,648 (+)Ensembl
RefSeq Acc Id: XM_007979618   ⟹   XP_007977809
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.120101,052,445 - 101,080,826 (+)NCBI
Vero_WHO_p1.0NW_02366603315,610,820 - 15,638,954 (-)NCBI
Sequence:
RefSeq Acc Id: XM_037993753   ⟹   XP_037849681
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366603315,610,820 - 15,638,954 (-)NCBI
Protein Sequences
Protein RefSeqs XP_007977809 (Get FASTA)   NCBI Sequence Viewer  
  XP_037849681 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000016972.1
RefSeq Acc Id: XP_007977809   ⟸   XM_007979618
- Peptide Label: isoform X1
- UniProtKB: A0A0D9S7Y3 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSCSAP00000016972   ⟸   ENSCSAT00000017492
RefSeq Acc Id: XP_037849681   ⟸   XM_037993753
- Peptide Label: isoform X2
- UniProtKB: A0A0D9S7Y3 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000001041 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000017492.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.472.30 UniProtKB/TrEMBL
InterPro SPOC_C UniProtKB/TrEMBL
  TFIIS_cen_dom UniProtKB/TrEMBL
  TFIIS_cen_dom_sf UniProtKB/TrEMBL
NCBI Gene SPOCD1 ENTREZGENE
PANTHER SPOC DOMAIN-CONTAINING PROTEIN 1 UniProtKB/TrEMBL
  TRANSCRIPTION FACTOR S-II ZINC FINGER DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
Pfam SPOC UniProtKB/TrEMBL
  TFIIS_M UniProtKB/TrEMBL
PROSITE TFIIS_CENTRAL UniProtKB/TrEMBL
SMART TFS2M UniProtKB/TrEMBL
Superfamily-SCOP SSF46942 UniProtKB/TrEMBL
UniProt A0A0D9S7Y3 ENTREZGENE, UniProtKB/TrEMBL