Zscan30 (zinc finger and SCAN domain containing 30) - Rat Genome Database

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Gene: Zscan30 (zinc finger and SCAN domain containing 30) Mus musculus
Analyze
Symbol: Zscan30
Name: zinc finger and SCAN domain containing 30
RGD ID: 1314513
MGI Page MGI
Description: Orthologous to human ZSCAN30 (zinc finger and SCAN domain containing 30).
Type: protein-coding (Ensembl: transcribed_unprocessed_pseudogene)
RefSeq Status: VALIDATED
Previously known as: C230097I24Rik; Gm754; Zfp39; Zfp397os; zinc finger and SCAN domain-containing protein 30; zinc finger protein 397 opposite strand
RGD Orthologs
Human
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391824,065,597 - 24,120,362 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1824,097,875 - 24,104,844 (-)EnsemblGRCm39 Ensembl
GRCm381823,932,591 - 23,987,305 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1823,964,818 - 23,987,226 (-)EnsemblGRCm38mm10GRCm38
MGSCv371824,129,476 - 24,140,056 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361824,110,237 - 24,114,799 (-)NCBIMGSCv36mm8
Celera1824,461,048 - 24,471,627 (-)NCBICelera
Cytogenetic Map18A2NCBI
cM Map1812.47NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:16141072   PMID:16141073   PMID:18287559   PMID:21267068  


Genomics

Comparative Map Data
Zscan30
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391824,065,597 - 24,120,362 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1824,097,875 - 24,104,844 (-)EnsemblGRCm39 Ensembl
GRCm381823,932,591 - 23,987,305 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1823,964,818 - 23,987,226 (-)EnsemblGRCm38mm10GRCm38
MGSCv371824,129,476 - 24,140,056 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361824,110,237 - 24,114,799 (-)NCBIMGSCv36mm8
Celera1824,461,048 - 24,471,627 (-)NCBICelera
Cytogenetic Map18A2NCBI
cM Map1812.47NCBI
ZSCAN30
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381835,251,062 - 35,290,229 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1835,251,058 - 35,290,245 (-)EnsemblGRCh38hg38GRCh38
GRCh371832,831,026 - 32,870,193 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361831,084,629 - 31,124,191 (-)NCBINCBI36Build 36hg18NCBI36
Celera1829,638,924 - 29,678,100 (-)NCBICelera
Cytogenetic Map18q12.2NCBI
HuRef1829,690,031 - 29,729,813 (-)NCBIHuRef
CHM1_11832,758,008 - 32,797,171 (-)NCBICHM1_1
T2T-CHM13v2.01835,442,347 - 35,481,602 (-)NCBIT2T-CHM13v2.0
Zscan30
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81815,524,313 - 15,540,983 (-)NCBIGRCr8
mRatBN7.21815,245,140 - 15,266,204 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1815,244,379 - 15,264,632 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1815,434,671 - 15,451,334 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01816,217,375 - 16,234,038 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01815,507,113 - 15,523,776 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01815,866,470 - 15,880,569 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1815,868,068 - 15,873,793 (-)NCBIRnor6.0rn6Rnor6.0
Rnor_5.01815,633,119 - 15,646,180 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41815,734,841 - 15,740,323 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11815,761,405 - 15,766,969 (-)NCBI
Celera1815,199,908 - 15,214,437 (-)NCBICelera
Cytogenetic Map18p12NCBI
ZSCAN30
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21752,640,018 - 52,679,502 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11838,331,190 - 38,372,125 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01828,469,523 - 28,509,063 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11832,058,375 - 32,097,883 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1832,058,375 - 32,074,965 (-)Ensemblpanpan1.1panPan2
ZSCAN30
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1754,741,734 - 54,748,122 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl754,742,067 - 54,746,668 (+)EnsemblCanFam3.1canFam3CanFam3.1
Zscan30
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494450,460,608 - 50,475,816 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365179,787,933 - 9,803,224 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365179,788,240 - 9,802,619 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZSCAN30
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6119,090,495 - 119,116,270 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16119,088,184 - 119,116,257 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26111,405,593 - 111,431,217 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ZSCAN30
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11845,475,194 - 45,615,750 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1845,497,362 - 45,508,287 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605019,977,945 - 20,013,372 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Zscan30
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247799,680,315 - 9,686,601 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247799,678,549 - 9,708,490 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Zscan30
1786 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:109
Count of miRNA genes:108
Interacting mature miRNAs:109
Transcripts:ENSMUST00000115829
Prediction methods:Miranda, Rnahybrid
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
14928307Manh83_mmandible shape 83 (mouse)18126902168Mouse
11354953Mom21_mmodifier of Min 21 (mouse)18128893823Mouse
12801462Intim3_mintima modifier 3 (mouse)18131720756Mouse
12801458Intmrm3_mintima/media ratio modifier 3 (mouse)18131720756Mouse
13207585Mwmlpt3_mMorris water maze latency to platform, training, 3 (mouse)18133547739Mouse
13207589Mwmlpa3_mMorris water maze latency to platform, all, 3 (mouse)18133547739Mouse
27226723Tibw9_mtibia width 9, proximal, 16 week (mouse)18320000060933072Mouse
1558849W3q15_mweight 3 weeks QTL 15 (mouse)Not determined18504111961272643Mouse
1558873Hrtfm7_mheart failure modifier 7 (mouse)Not determined18808696442087106Mouse
13504732Cath6_mcarotid atherosclerosis 6 (mouse)181363712647637126Mouse
1357603Mom3_mmodifier of Min 3 (mouse)Not determined181403002367098962Mouse
1300994Pvcan3_mprotection against vaginal candidiasis 3 (mouse)Not determined181619964050199776Mouse
1301307Phospq1_mphospholipid QTL 1 (mouse)Not determined181813970452139859Mouse
12910787Pwbwq18_mpost-weaning body weight QTL 18 (mouse)181826552930570819Mouse
12910805Pwbwq17_mpost-weaning body weight QTL 17 (mouse)181826552930570819Mouse
12910819Ogrq6_moverall growth rate QTL 6 (mouse)181826552930570819Mouse
1300638Im7_mimmunoregulatory 7 (mouse)Not determined181901887453018992Mouse
1558743Kcal1_mkilocalorie 1 (mouse)Not determined181901887453018992Mouse
11532709Sluc41_msusceptibility to lung cancer 41 (mouse)182095369457590708Mouse
13463476Hctq8_mhematocrit QTL 8 (mouse)182121758055217727Mouse
1301950Otx2m1_morthodenticle homolog 2 (Drosophila) modifier 1 (mouse)Not determined182156868236187740Mouse
1300877Adip8_madiposity 8 (mouse)Not determined182261991456620127Mouse
11532710Sluc41a_msusceptibility to lung cancer 41a (mouse)182261991456620127Mouse
11532715Sluc41b_msusceptibility to lung cancer 41b (mouse)182261991456620127Mouse
11532716Sluc41c_msusceptibility to lung cancer 41c (mouse)182261991456620127Mouse
1301570Sluc14_msusceptibility to lung cancer 14 (mouse)Not determined182261991456620127Mouse
4142031Moen1_mmodifier of engrailed QTL 1 (mouse)Not determined182411556058115730Mouse

Markers in Region
RH126090  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381823,986,512 - 23,986,724UniSTSGRCm38
GRCm381191,832,718 - 191,832,929UniSTSGRCm38
MGSCv371193,656,597 - 193,656,808UniSTSGRCm37
MGSCv371824,145,013 - 24,145,225UniSTSGRCm37
Celera1824,476,586 - 24,476,798UniSTS
Celera1198,783,796 - 198,783,999UniSTS
Cytogenetic Map1H6UniSTS
Cytogenetic Map18A2UniSTS
cM Map1103.0UniSTS


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001370933 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001370934 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001370935 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001370936 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001370937 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_163795 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011247054 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011247055 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017318022 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036161178 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC126807 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK049082 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK053535 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK164630 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC117067 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC117069 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000115829
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1824,097,875 - 24,104,844 (-)Ensembl
GRCm38.p6 Ensembl1823,964,818 - 23,971,787 (-)Ensembl
RefSeq Acc Id: ENSMUST00000224144
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1824,099,737 - 24,120,283 (-)Ensembl
GRCm38.p6 Ensembl1823,966,680 - 23,987,226 (-)Ensembl
RefSeq Acc Id: ENSMUST00000241388
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1824,067,027 - 24,120,309 (-)Ensembl
RefSeq Acc Id: ENSMUST00000242934
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1824,067,013 - 24,120,329 (-)Ensembl
RefSeq Acc Id: ENSMUST00000243174
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1824,097,697 - 24,120,309 (-)Ensembl
RefSeq Acc Id: ENSMUST00000244328
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1824,118,941 - 24,120,309 (-)Ensembl
RefSeq Acc Id: NM_001370933   ⟹   NP_001357862
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391824,096,842 - 24,120,309 (-)NCBI
GRCm381823,963,785 - 23,987,252 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001370934   ⟹   NP_001357863
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391824,096,842 - 24,120,309 (-)NCBI
GRCm381823,963,785 - 23,987,252 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001370935   ⟹   NP_001357864
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391824,096,842 - 24,120,309 (-)NCBI
GRCm381823,963,785 - 23,987,252 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001370936   ⟹   NP_001357865
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391824,096,842 - 24,120,309 (-)NCBI
GRCm381823,963,785 - 23,987,252 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001370937   ⟹   NP_001357866
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391824,065,648 - 24,120,309 (-)NCBI
GRCm381823,932,591 - 23,987,252 (-)NCBI
Sequence:
RefSeq Acc Id: NR_163795
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391824,065,648 - 24,120,309 (-)NCBI
GRCm381823,932,591 - 23,987,252 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011247054   ⟹   XP_011245356
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391824,095,825 - 24,104,520 (-)NCBI
GRCm381823,962,768 - 23,971,463 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011247055   ⟹   XP_011245357
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391824,095,825 - 24,120,362 (-)NCBI
GRCm381823,962,768 - 23,987,305 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017318022   ⟹   XP_017173511
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391824,095,825 - 24,120,362 (-)NCBI
GRCm381823,971,008 - 23,987,305 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036161178   ⟹   XP_036017071
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391824,065,597 - 24,120,362 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_011245357   ⟸   XM_011247055
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_011245356   ⟸   XM_011247054
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017173511   ⟸   XM_017318022
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: NP_001357866   ⟸   NM_001370937
- Peptide Label: isoform 3
RefSeq Acc Id: NP_001357864   ⟸   NM_001370935
- Peptide Label: isoform 1
RefSeq Acc Id: NP_001357863   ⟸   NM_001370934
- Peptide Label: isoform 1
RefSeq Acc Id: NP_001357862   ⟸   NM_001370933
- Peptide Label: isoform 1
RefSeq Acc Id: NP_001357865   ⟸   NM_001370936
- Peptide Label: isoform 2
RefSeq Acc Id: XP_036017071   ⟸   XM_036161178
- Peptide Label: isoform X2
Protein Domains
SCAN box

Promoters
RGD ID:13677252
Promoter ID:EPDNEW_M22775
Type:multiple initiation site
Name:AK049082_1
Description:n/a
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381823,987,244 - 23,987,304EPDNEW
RGD ID:6829130
Promoter ID:MM_KWN:24764
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Lung,   MEF_B4,   MEF_B6
Transcripts:UC008EGI.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361824,145,426 - 24,145,926 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2685600 AgrOrtholog
Ensembl Genes ENSMUSG00000024274 Ensembl
Gene3D-CATH 1.10.4020.10 UniProtKB/TrEMBL
InterPro SCAN_sf UniProtKB/TrEMBL
  Tscrpt_reg_SCAN UniProtKB/TrEMBL
MGD MGI:2685600 ENTREZGENE
NCBI Gene 328918 ENTREZGENE
PANTHER PROTEIN ZBED8-RELATED UniProtKB/TrEMBL
  SCAN DOMAIN-CONTAINING PROTEIN 3 UniProtKB/TrEMBL
Pfam SCAN UniProtKB/TrEMBL
PhenoGen Zscan30 PhenoGen
PROSITE SCAN_BOX UniProtKB/TrEMBL
SMART SCAN UniProtKB/TrEMBL
Superfamily-SCOP Retrovirus capsid dimerization domain-like UniProtKB/TrEMBL
UniProt Q149X8_MOUSE UniProtKB/TrEMBL
  Q3TP86_MOUSE UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-07-27 Zscan30  zinc finger and SCAN domain containing 30  Zfp397os  zinc finger protein 397 opposite strand  Symbol and/or name change 5135510 APPROVED