ZNF556 (zinc finger protein 556) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: ZNF556 (zinc finger protein 556) Canis lupus familiaris
Analyze
Symbol: ZNF556
Name: zinc finger protein 556
RGD ID: 12227974
Description: ENCODES a protein that exhibits DNA binding (inferred); DNA-binding transcription repressor activity, RNA polymerase II-specific (inferred); metal ion binding (inferred); INVOLVED IN regulation of DNA-templated transcription (inferred); ASSOCIATED WITH genetic disease (ortholog); Neurodevelopmental Disorders (ortholog); FOUND IN nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Bonobo
Squirrel
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12056,333,136 - 56,357,075 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2056,336,162 - 56,347,541 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2056,131,529 - 56,144,696 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02057,067,624 - 57,080,842 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2057,069,480 - 57,071,802 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12056,121,732 - 56,134,866 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02056,605,856 - 56,619,020 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02056,806,452 - 56,819,599 (-)NCBIUU_Cfam_GSD_1.0
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

Biological Process

Cellular Component
nucleus  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
ZNF556
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12056,333,136 - 56,357,075 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2056,336,162 - 56,347,541 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2056,131,529 - 56,144,696 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02057,067,624 - 57,080,842 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2057,069,480 - 57,071,802 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12056,121,732 - 56,134,866 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02056,605,856 - 56,619,020 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02056,806,452 - 56,819,599 (-)NCBIUU_Cfam_GSD_1.0
ZNF556
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38192,867,335 - 2,883,445 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl192,867,335 - 2,883,445 (+)EnsemblGRCh38hg38GRCh38
GRCh37192,867,333 - 2,883,443 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36192,818,333 - 2,829,501 (+)NCBINCBI36Build 36hg18NCBI36
Build 34192,818,332 - 2,829,501NCBI
Celera192,802,646 - 2,813,816 (+)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef192,638,308 - 2,649,478 (+)NCBIHuRef
CHM1_1192,866,920 - 2,878,107 (+)NCBICHM1_1
T2T-CHM13v2.0192,842,602 - 2,858,723 (+)NCBIT2T-CHM13v2.0
ZNF556
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2207,252,926 - 7,273,635 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1196,485,667 - 6,506,365 (+)NCBINHGRI_mPanPan1
Znf556
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118216,171,676 - 216,179,437 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049365881,655,365 - 1,662,873 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZNF556
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.162,649,000 - 2,662,610 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660815,932,981 - 5,947,590 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in ZNF556
298 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
Low 6 8
Below cutoff 5 5 22 6 6 6 6 12 10 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000050084   ⟹   ENSCAFP00000040277
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2056,336,162 - 56,347,541 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845019853   ⟹   ENSCAFP00845015547
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2057,069,480 - 57,071,802 (-)Ensembl
RefSeq Acc Id: XM_038429206   ⟹   XP_038285134
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02057,067,624 - 57,080,842 (-)NCBI
RefSeq Acc Id: XM_038455139   ⟹   XP_038311067
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha2056,131,529 - 56,144,696 (-)NCBI
RefSeq Acc Id: XM_038504739   ⟹   XP_038360667
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.12056,121,732 - 56,134,866 (-)NCBI
RefSeq Acc Id: XM_038567880   ⟹   XP_038423808
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.02056,806,452 - 56,819,599 (-)NCBI
RefSeq Acc Id: XM_038632004   ⟹   XP_038487932
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.02056,605,856 - 56,619,020 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSCAFP00000040277   ⟸   ENSCAFT00000050084
RefSeq Acc Id: XP_038360667   ⟸   XM_038504739
RefSeq Acc Id: XP_038487932   ⟸   XM_038632004
RefSeq Acc Id: XP_038285134   ⟸   XM_038429206
RefSeq Acc Id: XP_038311067   ⟸   XM_038455139
RefSeq Acc Id: XP_038423808   ⟸   XM_038567880
RefSeq Acc Id: ENSCAFP00845015547   ⟸   ENSCAFT00845019853
Protein Domains
C2H2-type   KRAB


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000032592 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00040010038 UniProtKB/TrEMBL
  ENSCAFG00845011193 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000050084.3 UniProtKB/TrEMBL
  ENSCAFT00040018641.1 UniProtKB/TrEMBL
  ENSCAFT00845019853.1 UniProtKB/TrEMBL
Gene3D-CATH 6.10.140.140 UniProtKB/TrEMBL
  Classic Zinc Finger UniProtKB/TrEMBL
InterPro KRAB UniProtKB/TrEMBL
  KRAB_dom_sf UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
  Znf_C2H2_type UniProtKB/TrEMBL
NCBI Gene ZNF556 ENTREZGENE
PANTHER ZINC FINGER PROTEIN UniProtKB/TrEMBL
  ZINC FINGER PROTEIN 556 UniProtKB/TrEMBL
  ZINC FINGER PROTEIN 78 UniProtKB/TrEMBL
Pfam KRAB UniProtKB/TrEMBL
  zf-C2H2 UniProtKB/TrEMBL
  zf-C2H2_4 UniProtKB/TrEMBL
PROSITE KRAB UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
SMART KRAB UniProtKB/TrEMBL
  ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP SSF109640 UniProtKB/TrEMBL
  SSF57667 UniProtKB/TrEMBL
UniProt A0A8C0S567_CANLF UniProtKB/TrEMBL
  A0A8I3NK01_CANLF UniProtKB/TrEMBL
UniProt Secondary A0A8P0NRG0 UniProtKB/TrEMBL
VGNC ID VGNC:48760 ENTREZGENE