Zscan18 (zinc finger and SCAN domain containing 18) - Rat Genome Database

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Gene: Zscan18 (zinc finger and SCAN domain containing 18) Rattus norvegicus
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Symbol: Zscan18
Name: zinc finger and SCAN domain containing 18
RGD ID: 1560671
Description: Predicted to enable zinc ion binding activity. Predicted to be located in nucleus. Orthologous to human ZSCAN18 (zinc finger and SCAN domain containing 18); INTERACTS WITH bisphenol A; bromobenzene; thioacetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC499083; RGD1560671; similar to hypothetical protein FLJ12895; zinc finger and SCAN domain-containing protein 18
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8182,405,071 - 82,418,782 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl182,405,071 - 82,418,698 (-)EnsemblGRCr8
mRatBN7.2173,332,883 - 73,349,846 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl173,332,889 - 73,345,897 (-)EnsemblmRatBN7.2
Rnor_6.0165,845,274 - 65,858,966 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl165,851,060 - 65,857,872 (+)Ensemblrn6Rnor6.0
Rnor_5.0166,661,602 - 66,670,021 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4173,243,987 - 73,251,347 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera160,409,877 - 60,481,855 (+)NCBICelera
Cytogenetic Map1q21NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleus  (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. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Zscan18
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8182,405,071 - 82,418,782 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl182,405,071 - 82,418,698 (-)EnsemblGRCr8
mRatBN7.2173,332,883 - 73,349,846 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl173,332,889 - 73,345,897 (-)EnsemblmRatBN7.2
Rnor_6.0165,845,274 - 65,858,966 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl165,851,060 - 65,857,872 (+)Ensemblrn6Rnor6.0
Rnor_5.0166,661,602 - 66,670,021 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4173,243,987 - 73,251,347 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera160,409,877 - 60,481,855 (+)NCBICelera
Cytogenetic Map1q21NCBI
ZSCAN18
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381958,083,842 - 58,118,426 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1958,083,834 - 58,118,427 (-)Ensemblhg38GRCh38
GRCh371958,595,209 - 58,629,793 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361963,287,018 - 63,301,389 (-)NCBIBuild 36Build 36hg18NCBI36
Celera1955,638,556 - 55,673,723 (-)NCBICelera
Cytogenetic Map19q13.43NCBI
HuRef1954,906,203 - 54,940,435 (-)NCBIHuRef
CHM1_11958,588,875 - 58,624,081 (-)NCBICHM1_1
T2T-CHM13v2.01961,180,644 - 61,214,896 (-)NCBIT2T-CHM13v2.0
Zscan18
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39712,502,017 - 12,537,565 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl712,502,017 - 12,537,562 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38712,768,090 - 12,811,666 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl712,768,090 - 12,803,635 (-)Ensemblmm10GRCm38
MGSCv37713,353,441 - 13,361,007 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36711,668,271 - 11,671,295 (-)NCBIMGSCv36mm8
Celera710,392,311 - 10,399,877 (-)NCBICelera
Cytogenetic Map7A1NCBI
cM Map77.63NCBI
Zscan18
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955584845,783 - 858,501 (-)NCBIChiLan1.0ChiLan1.0
ZSCAN18
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22064,361,651 - 64,375,853 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11966,150,042 - 66,164,184 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01955,094,292 - 55,108,490 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11963,921,244 - 63,935,362 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1963,921,244 - 63,955,101 (-)EnsemblpanPan2panpan1.1
ZSCAN18
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1199,773,131 - 99,814,229 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl199,800,568 - 99,813,194 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1100,194,783 - 100,208,597 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01100,440,768 - 100,454,592 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1100,440,760 - 100,454,587 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11100,085,933 - 100,099,756 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0199,798,203 - 99,812,078 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01100,553,430 - 100,567,249 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Zscan18
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934983,115 - 112,203 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936897593,549 - 623,637 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936897594,522 - 623,579 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZSCAN18
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1650,387,239 - 50,425,289 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660453,644,800 - 3,707,606 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Zscan18
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v12174,426,472 - 174,441,339 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Zscan18
60 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:78
Count of miRNA genes:70
Interacting mature miRNAs:72
Transcripts:ENSRNOT00000036880
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
1331732Srn4Serum renin concentration QTL 44.467renin activity (VT:0005581)plasma renin activity level (CMO:0000116)14345783787558729Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)151940904101229020Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)151941022208479811Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)139728272132889942Rat
4889929Bss87Bone structure and strength QTL 876.7tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)14630261591302615Rat
1331792Rf29Renal function QTL 294.589urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)14345783787558729Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)14630261591302615Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)151940904168768703Rat
8552900Pigfal1Plasma insulin-like growth factor 1 level QTL 17.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)14350995288509952Rat
1354643Foco2Food consumption QTL 27.170.0001eating behavior trait (VT:0001431)food intake rate (CMO:0000427)14212296887122968Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)166404680111404680Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134184556172281316Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)14630261591302615Rat
631512Scl6Serum cholesterol level QTL 69.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)18126986099645535Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)166009857160501508Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134565911208798288Rat
1331778Rf28Renal function QTL 284.66urine potassium amount (VT:0010539)urine potassium excretion rate (CMO:0000761)14345783787558729Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)14630261591302615Rat
1302788Scl19Serum cholesterol QTL 194.60.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)166400974132889942Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)151511344153680016Rat
1331785Rf27Renal function QTL 274.643urine sodium amount (VT:0006274)urine sodium level (CMO:0000129)13070837587558729Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16540563796805205Rat
4889962Bss94Bone structure and strength QTL 943.8tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)15190920691302615Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)158769992103769992Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)166077886111077886Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)14630261591302615Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
9589820Insglur3Insulin/glucose ratio QTL 310.750.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)14350995288509952Rat
152025249Scl82Serum cholesterol level QTL 824.77blood cholesterol amount (VT:0000180)152891222109116986Rat
1354599Bw29Body weight QTL 293.460.001body mass (VT:0001259)body weight (CMO:0000012)14212296887122968Rat
4889919Bss86Bone structure and strength QTL 864.1tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)14630261591302615Rat
8552948Pigfal11Plasma insulin-like growth factor 1 level QTL 114.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)14350995288509952Rat

Markers in Region
RH132608  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2173,332,907 - 73,333,090 (-)MAPPERmRatBN7.2
Rnor_6.0165,858,761 - 65,858,943NCBIRnor6.0
Rnor_5.0166,669,816 - 66,669,998UniSTSRnor5.0
RGSC_v3.4173,242,972 - 73,243,154UniSTSRGSC3.4
Celera160,482,463 - 60,482,645UniSTS
RH 3.4 Map2649.0UniSTS
Cytogenetic Map1q21UniSTS


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
16 11 66 157 85 84 53 65 53 6 320 163 11 136 80 92 31 15 15

Sequence


Ensembl Acc Id: ENSRNOT00000036880   ⟹   ENSRNOP00000036503
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl182,405,071 - 82,418,698 (-)Ensembl
mRatBN7.2 Ensembl173,332,889 - 73,345,897 (-)Ensembl
Rnor_6.0 Ensembl165,851,060 - 65,857,872 (+)Ensembl
RefSeq Acc Id: NM_001427176   ⟹   NP_001414105
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8182,405,071 - 82,418,698 (-)NCBI
RefSeq Acc Id: XR_005498714
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8182,406,664 - 82,418,782 (-)NCBI
mRatBN7.2173,334,475 - 73,349,843 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001414105 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL75783 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000036503
  ENSRNOP00000036503.7
Ensembl Acc Id: ENSRNOP00000036503   ⟸   ENSRNOT00000036880
RefSeq Acc Id: NP_001414105   ⟸   NM_001427176
- UniProtKB: D3ZCL4 (UniProtKB/TrEMBL)
Protein Domains
C2H2-type   SCAN box

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZCL4-F1-model_v2 AlphaFold D3ZCL4 1-610 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:1560671 AgrOrtholog
BioCyc Gene G2FUF-60720 BioCyc
Ensembl Genes ENSRNOG00000026861 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000036880 ENTREZGENE
  ENSRNOT00000036880.8 UniProtKB/TrEMBL
Gene3D-CATH 1.10.4020.10 UniProtKB/TrEMBL
  Classic Zinc Finger UniProtKB/TrEMBL
InterPro SCAN-C2H2_zinc_finger UniProtKB/TrEMBL
  SCAN_dom UniProtKB/TrEMBL
  SCAN_sf UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
  Znf_C2H2_type UniProtKB/TrEMBL
NCBI Gene 499083 ENTREZGENE
PANTHER PROTEIN ZBED8-RELATED UniProtKB/TrEMBL
  ZINC FINGER AND SCAN DOMAIN CONTAINING 18 UniProtKB/TrEMBL
Pfam SCAN UniProtKB/TrEMBL
PhenoGen Zscan18 PhenoGen
PROSITE SCAN_BOX UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000026861 RatGTEx
SMART SCAN UniProtKB/TrEMBL
  ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP Retrovirus capsid dimerization domain-like UniProtKB/TrEMBL
  SSF57667 UniProtKB/TrEMBL
UniProt D3ZCL4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-04-23 Zscan18  zinc finger and SCAN domain containing 18  RGD1560671  similar to hypothetical protein FLJ12895  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1560671  similar to hypothetical protein FLJ12895   RGD1560671_predicted  similar to hypothetical protein FLJ12895 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1560671_predicted  similar to hypothetical protein FLJ12895 (predicted)  LOC499083  similar to hypothetical protein FLJ12895  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC499083  similar to hypothetical protein FLJ12895      Symbol and Name status set to provisional 70820 PROVISIONAL