Zfp488 (zinc finger protein 488) - Rat Genome Database

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Gene: Zfp488 (zinc finger protein 488) Rattus norvegicus
Analyze
Symbol: Zfp488
Name: zinc finger protein 488
RGD ID: 1309835
Description: Predicted to enable zinc ion binding activity. Predicted to be involved in oligodendrocyte development; positive regulation of myelination; and regulation of DNA-templated transcription. Predicted to act upstream of or within negative regulation of DNA-templated transcription and positive regulation of oligodendrocyte differentiation. Predicted to be active in nucleus. Orthologous to human ZNF488 (zinc finger protein 488); INTERACTS WITH bisphenol A; Cuprizon; fenvalerate.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC290571; Znf488
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8169,289,286 - 9,299,928 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl169,280,322 - 9,300,400 (-)EnsemblGRCr8
mRatBN7.2169,283,039 - 9,293,681 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl169,283,043 - 9,293,671 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx169,302,496 - 9,313,151 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01610,447,207 - 10,457,866 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0169,297,567 - 9,308,224 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01610,292,964 - 10,304,794 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1610,294,931 - 10,296,341 (-)Ensemblrn6Rnor6.0
Rnor_5.0168,613,607 - 8,625,063 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4169,599,510 - 9,600,526 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera165,916,539 - 5,928,369 (+)NCBICelera
RGSC_v3.1169,599,507 - 9,614,045 (-)NCBI
Cytogenetic Map16p16-p15NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleoplasm  (ISO)
nucleus  (IBA,IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16908628   PMID:22355521  


Genomics

Comparative Map Data
Zfp488
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8169,289,286 - 9,299,928 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl169,280,322 - 9,300,400 (-)EnsemblGRCr8
mRatBN7.2169,283,039 - 9,293,681 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl169,283,043 - 9,293,671 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx169,302,496 - 9,313,151 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01610,447,207 - 10,457,866 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0169,297,567 - 9,308,224 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01610,292,964 - 10,304,794 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1610,294,931 - 10,296,341 (-)Ensemblrn6Rnor6.0
Rnor_5.0168,613,607 - 8,625,063 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4169,599,510 - 9,600,526 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera165,916,539 - 5,928,369 (+)NCBICelera
RGSC_v3.1169,599,507 - 9,614,045 (-)NCBI
Cytogenetic Map16p16-p15NCBI
ZNF488
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381047,365,496 - 47,384,293 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1047,356,520 - 47,384,325 (-)Ensemblhg38GRCh38
GRCh371048,355,069 - 48,373,866 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361047,975,095 - 47,993,872 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341047,975,094 - 47,993,870NCBI
Celera1044,779,013 - 44,797,770 (+)NCBICelera
Cytogenetic Map10q11.22NCBI
HuRef1043,107,591 - 43,126,347 (+)NCBIHuRef
CHM1_11048,520,142 - 48,538,914 (+)NCBICHM1_1
T2T-CHM13v2.01048,256,793 - 48,275,590 (-)NCBIT2T-CHM13v2.0
Zfp488
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391433,689,023 - 33,700,986 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1433,689,027 - 33,700,721 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381433,967,070 - 33,979,034 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1433,967,070 - 33,978,764 (-)Ensemblmm10GRCm38
MGSCv371434,780,256 - 34,791,950 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361432,796,162 - 32,807,856 (-)NCBIMGSCv36mm8
Celera1430,233,294 - 30,246,477 (-)NCBICelera
Cytogenetic Map14BNCBI
cM Map1420.8NCBI
Znf488
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555562,227,805 - 2,237,874 (-)NCBIChiLan1.0ChiLan1.0
ZNF488
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2859,929,326 - 59,944,336 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11059,934,638 - 59,947,631 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01046,565,330 - 46,584,964 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
ZNF488
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1434,916,782 - 34,966,706 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl434,899,635 - 34,966,452 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha434,917,453 - 34,930,808 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0435,313,639 - 35,326,951 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl435,275,570 - 35,326,953 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1435,145,417 - 35,158,712 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0435,326,560 - 35,339,844 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0435,834,149 - 35,847,468 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Znf488
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721381,337,938 - 81,350,135 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365547,350,351 - 7,351,360 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365547,347,632 - 7,362,025 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZNF488
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1488,474,122 - 88,487,203 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11488,474,122 - 88,526,333 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21496,135,789 - 96,151,008 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ZNF488
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1944,131,989 - 44,149,905 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660483,903,989 - 3,922,244 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Znf488
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1139,740,911 - 9,750,173 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Zfp488
151 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:94
Count of miRNA genes:87
Interacting mature miRNAs:90
Transcripts:ENSRNOT00000031496
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1582235Insul8Insulin level QTL 83.30.0063blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)16423421216278352Rat
1549842Bp248Blood pressure QTL 2480.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1638712345387123Rat
2307172Activ4Activity QTL 43.710.00023locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)16133425095Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139568015Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16423421253708481Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16474422249744222Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16423421216278352Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16126734272Rat
631830Alc7Alcohol consumption QTL 72.9consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16126734272Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16435482249354822Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)1638712345387123Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16423421249757901Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16423421266955197Rat
737825Alc13Alcohol consumption QTL 134.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16423421216061395Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139568015Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683908666195506Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16338679049757901Rat
1300133Rf24Renal function QTL 243.64blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)16338679026128267Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683908666195506Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683908666195506Rat
634355Rends4Renal damage susceptibility QTL 40.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)16126734272Rat
61372Bp40Blood pressure QTL 402.2blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)16423433317730812Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683908652786090Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683908666195506Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16330168348301683Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
8 2 50 136 33 30 15 7 15 6 119 74 3 127 20 80 15 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000083990   ⟹   ENSRNOP00000075699
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl169,289,257 - 9,299,032 (-)Ensembl
mRatBN7.2 Ensembl169,283,043 - 9,293,671 (-)Ensembl
Rnor_6.0 Ensembl1610,294,931 - 10,296,341 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000138846   ⟹   ENSRNOP00000105011
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl169,288,568 - 9,296,128 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000148733   ⟹   ENSRNOP00000108027
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl169,288,533 - 9,300,400 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000158285   ⟹   ENSRNOP00000104058
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl169,280,322 - 9,300,398 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000168599   ⟹   ENSRNOP00000100008
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl169,289,804 - 9,300,108 (-)Ensembl
RefSeq Acc Id: NM_001399139   ⟹   NP_001386068
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8169,289,286 - 9,299,928 (-)NCBI
mRatBN7.2169,283,039 - 9,293,681 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001386068 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000075699.1
  ENSRNOP00000100008.1
  ENSRNOP00000104058.1
  ENSRNOP00000105011.1
  ENSRNOP00000108027
  ENSRNOP00000108027.1
Ensembl Acc Id: ENSRNOP00000075699   ⟸   ENSRNOT00000083990
RefSeq Acc Id: NP_001386068   ⟸   NM_001399139
- UniProtKB: D4AAF0 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000105011   ⟸   ENSRNOT00000138846
Ensembl Acc Id: ENSRNOP00000104058   ⟸   ENSRNOT00000158285
Ensembl Acc Id: ENSRNOP00000108027   ⟸   ENSRNOT00000148733
Ensembl Acc Id: ENSRNOP00000100008   ⟸   ENSRNOT00000168599
Protein Domains
C2H2-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4AAF0-F1-model_v2 AlphaFold D4AAF0 1-338 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309835 AgrOrtholog
BioCyc Gene G2FUF-12081 BioCyc
Ensembl Genes ENSRNOG00000057542 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000083990.3 UniProtKB/TrEMBL
  ENSRNOT00000138846.1 UniProtKB/TrEMBL
  ENSRNOT00000148733 ENTREZGENE
  ENSRNOT00000148733.1 UniProtKB/TrEMBL
  ENSRNOT00000158285.1 UniProtKB/TrEMBL
  ENSRNOT00000168599.1 UniProtKB/TrEMBL
Gene3D-CATH Classic Zinc Finger UniProtKB/TrEMBL
InterPro TR-Histone_Methyltrans UniProtKB/TrEMBL
  Znf_C2H2_type UniProtKB/TrEMBL
NCBI Gene 290571 ENTREZGENE
PANTHER AGAP007109-PA UniProtKB/TrEMBL
  ZINC FINGER PROTEIN 488 UniProtKB/TrEMBL
PhenoGen Zfp488 PhenoGen
PROSITE ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000057542 RatGTEx
SMART ZnF_C2H2 UniProtKB/TrEMBL
UniProt A0ABK0L6K4_RAT UniProtKB/TrEMBL
  D4AAF0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-07-19 Zfp488  zinc finger protein 488  Znf488  zinc finger protein 488  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-25 Znf488  zinc finger protein 488  Zfp488  zinc finger protein 488   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Zfp488  zinc finger protein 488   Zfp488_predicted  zinc finger protein 488 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Zfp488_predicted  zinc finger protein 488 (predicted)  Znf488_predicted    Symbol updated 1299863 APPROVED
2005-01-12 Znf488_predicted  zinc finger protein 488 (predicted)      Symbol and Name status set to approved 70820 APPROVED