LOC102164547 (zinc finger protein 420) - Rat Genome Database

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Gene: LOC102164547 (zinc finger protein 420) Sus scrofa
Analyze
Symbol: LOC102164547
Name: zinc finger protein 420
RGD ID: 14020324
Description: ENCODES a protein that exhibits DNA binding (inferred); metal ion binding (inferred); INVOLVED IN blastocyst hatching (ortholog); PARTICIPATES IN p53 signaling pathway; ASSOCIATED WITH breast ductal carcinoma (ortholog); genetic disease (ortholog); invasive ductal carcinoma (ortholog); FOUND IN nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1646,479,566 - 46,530,528 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2641,950,032 - 41,993,016 (-)NCBISscrofa10.2Sscrofa10.2susScr3
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  (IBA,IEA)

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
LOC102164547
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1646,479,566 - 46,530,528 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2641,950,032 - 41,993,016 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ZNF420
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381937,007,902 - 37,130,368 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1937,007,857 - 37,130,368 (+)EnsemblGRCh38hg38GRCh38
GRCh371937,569,124 - 37,621,270 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361942,261,222 - 42,312,502 (+)NCBINCBI36Build 36hg18NCBI36
Celera1934,353,626 - 34,404,901 (+)NCBICelera
Cytogenetic Map19q13.12NCBI
HuRef1934,038,547 - 34,089,829 (+)NCBIHuRef
CHM1_11937,569,842 - 37,621,136 (+)NCBICHM1_1
T2T-CHM13v2.01939,682,827 - 39,805,340 (+)NCBIT2T-CHM13v2.0
Zfp420
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39729,559,392 - 29,576,727 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl729,559,404 - 29,576,717 (+)EnsemblGRCm39 Ensembl
GRCm38729,859,967 - 29,877,302 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl729,859,979 - 29,877,292 (+)EnsemblGRCm38mm10GRCm38
MGSCv37730,644,998 - 30,662,321 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36729,568,768 - 29,586,062 (+)NCBIMGSCv36mm8
Celera724,427,359 - 24,448,620 (+)NCBICelera
Cytogenetic Map7B1NCBI
cM Map717.26NCBI
Zfp420
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8194,259,715 - 94,271,102 (+)NCBIGRCr8
mRatBN7.2185,092,810 - 85,143,682 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl185,132,520 - 85,143,679 (+)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 Ensembl185,093,085 - 85,106,693 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0188,204,836 - 88,216,548 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl188,542,035 - 88,544,156 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl187,790,104 - 87,801,872 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl188,206,813 - 88,216,556 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0189,693,213 - 89,725,397 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4184,887,188 - 84,899,697 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera179,468,994 - 79,519,169 (+)NCBICelera
Cytogenetic Map1q21NCBI
ZNF420
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22043,219,072 - 43,275,533 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11945,105,390 - 45,159,576 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01934,039,699 - 34,093,881 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11942,674,723 - 42,727,746 (-)NCBIpanpan1.1PanPan1.1panPan2
LOC100682968
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11115,513,025 - 115,565,520 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1115,514,277 - 115,565,062 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1114,924,536 - 114,976,289 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01116,118,349 - 116,170,676 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1116,118,361 - 116,170,245 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11115,689,424 - 115,741,518 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01115,307,301 - 115,359,802 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01116,358,238 - 116,410,546 (-)NCBIUU_Cfam_GSD_1.0
Znf420
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934912,173,387 - 12,197,258 (-)NCBIHiC_Itri_2
SpeTri2.0NW_004936801338,743 - 403,206 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZNF420
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1631,849,382 - 31,893,981 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660739,771,970 - 9,816,864 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in LOC102164547
1096 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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 3 16
Low 10 4 5 2 7 2 3 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: XM_013998421   ⟹   XP_013853875
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1646,479,566 - 46,530,528 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_013853875 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSSCP00000059599.3
Reference Protein Sequences
RefSeq Acc Id: XP_013853875   ⟸   XM_013998421
- Sequence:
Protein Domains
C2H2-type   KRAB


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000002937 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000046937.3 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 LOC102164547 ENTREZGENE
PANTHER ZINC FINGER PROTEIN UniProtKB/TrEMBL
  ZINC FINGER PROTEIN 345-RELATED UniProtKB/TrEMBL
Pfam KRAB UniProtKB/TrEMBL
  zf-C2H2 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 beta-beta-alpha zinc fingers UniProtKB/TrEMBL
  KRAB domain (Kruppel-associated box) UniProtKB/TrEMBL
UniProt A0A287BT06_PIG UniProtKB/TrEMBL
UniProt Secondary A0A287ARG7 UniProtKB/TrEMBL