H2az1-ps2 (H2A.Z variant histone 1, pseudogene 2) - Rat Genome Database

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Gene: H2az1-ps2 (H2A.Z variant histone 1, pseudogene 2) Rattus norvegicus
Analyze
No known orthologs.
Symbol: H2az1-ps2
Name: H2A.Z variant histone 1, pseudogene 2
RGD ID: 1562306
Description: Predicted to enable protein heterodimerization activity. Predicted to be a structural constituent of chromatin. Predicted to be located in nucleus. Predicted to be part of nucleosome; INTERACTS WITH glyphosate.
Type: pseudo (Ensembl: protein-coding)
RefSeq Status: MODEL
Previously known as: AABR07062859.1; LOC366548; RGD1562306; similar to H2A histone family, member Z
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8612,116,545 - 12,116,943 (+)NCBIGRCr8
mRatBN7.266,362,973 - 6,363,359 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl66,362,988 - 6,363,359 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0611,859,622 - 11,860,016 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl611,859,630 - 11,860,001 (-)NCBIRnor6.0rn6Rnor6.0
Rnor_5.0621,831,335 - 21,831,759 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4611,747,486 - 11,747,872 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera66,129,519 - 6,129,913 (+)NCBICelera
Cytogenetic Map6q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
glyphosate  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleosome  (IBA)
nucleus  (IBA)

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.

Genomics

Variants

.
Variants in H2az1-ps2
1 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
738023Alc17Alcohol consumption QTL 173.10.003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)6127574569Rat
1354616Despr12Despair related QTL 120.0012locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)6127574569Rat
1549905Stresp10Stress response QTL 106.830.0066stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)6127574569Rat
2300176Bmd51Bone mineral density QTL 5111.70.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)6127574569Rat
2300190Bmd52Bone mineral density QTL 5211.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)6127574569Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)6134235784Rat
1578758Tcas9Tongue tumor susceptibility QTL 93.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)6137618905Rat
1598843Cm63Cardiac mass QTL 632.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)6139036266Rat
7411603Foco13Food consumption QTL 135.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6141223769Rat
8552962Pigfal16Plasma insulin-like growth factor 1 level QTL 169.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)6141223769Rat
7411542Bw127Body weight QTL 1275.50.001body mass (VT:0001259)body weight gain (CMO:0000420)6141223769Rat
9589129Insul24Insulin level QTL 2419.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)6141223769Rat
9589048Scfw3Subcutaneous fat weight QTL 34.570.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)6141223769Rat
2293709Bss23Bone structure and strength QTL 235.180.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)6142487980Rat
2293650Bss31Bone structure and strength QTL 315.050.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)6142487980Rat
2293656Bss28Bone structure and strength QTL 286.790.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)6142487980Rat
7411584Foco4Food consumption QTL 44.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6142838846Rat
738024Sach5Saccharine consumption QTL 53.90.00039consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)6143394190Rat
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6172227641Rat
2293706Bmd20Bone mineral density QTL 204.30.0002femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)6507449719988050Rat
1300128Rf16Renal function QTL 163.89renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449734434305Rat
1300164Rf15Renal function QTL 153.12renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449754641141Rat


Expression


Sequence

Nucleotide Sequences
GenBank Nucleotide JAXUCZ010000006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000052280   ⟹   ENSRNOP00000065187
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl66,362,988 - 6,363,359 (+)Ensembl
Protein Sequences
Ensembl Protein ENSRNOP00000065187.2
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000065187   ⟸   ENSRNOT00000052280
Protein Domains
Histone H2A C-terminal   Histone H2A/H2B/H3

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R6X5-F1-model_v2 AlphaFold M0R6X5 1-123 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:1562306 AgrOrtholog
BioCyc Gene G2FUF-38758 BioCyc
Ensembl Genes ENSRNOG00000031564 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000052280.5 UniProtKB/TrEMBL
Gene3D-CATH 1.10.20.10 UniProtKB/TrEMBL
InterPro Histone-fold UniProtKB/TrEMBL
  Histone_H2A UniProtKB/TrEMBL
  Histone_H2A/H2B/H3 UniProtKB/TrEMBL
  Histone_H2A_C UniProtKB/TrEMBL
NCBI Gene 366548 ENTREZGENE
PANTHER HISTONE H2A.Z UniProtKB/TrEMBL
  PTHR23430 UniProtKB/TrEMBL
Pfam Histone UniProtKB/TrEMBL
  Histone_H2A_C UniProtKB/TrEMBL
PhenoGen H2az1-ps2 PhenoGen
PRINTS HISTONEH2A UniProtKB/TrEMBL
RatGTEx ENSRNOG00000031564 RatGTEx
SMART H2A UniProtKB/TrEMBL
Superfamily-SCOP SSF47113 UniProtKB/TrEMBL
UniProt M0R6X5_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-10 H2az1-ps2  H2A.Z variant histone 1, pseudogene 2  RGD1562306  similar to H2A histone family, member Z  Symbol and Name Changed 1299863 APPROVED
2022-06-02 RGD1562306  similar to H2A histone family, member Z  AABR07062859.1    Data merged from RGD:15003894 737654 PROVISIONAL
2019-11-08 AABR07062859.1        Symbol and Name status set to provisional 45752 PROVISIONAL
2008-04-30 RGD1562306  similar to H2A histone family, member Z   RGD1562306_predicted  similar to H2A histone family, member Z (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1562306_predicted  similar to H2A histone family, member Z (predicted)  LOC366548  similar to H2A histone family, member Z  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC366548  similar to H2A histone family, member Z      Symbol and Name status set to provisional 70820 PROVISIONAL