H2az2l3 (H2A.Z histone variant 2 like 3) - Rat Genome Database

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Gene: H2az2l3 (H2A.Z histone variant 2 like 3) Rattus norvegicus
Analyze
No known orthologs.
Symbol: H2az2l3
Name: H2A.Z histone variant 2 like 3
RGD ID: 1560813
Description: Predicted to be a structural constituent of chromatin. Predicted to be involved in heterochromatin formation. Predicted to be part of nucleosome. Predicted to be active in nucleus. Orthologous to human H2AZ2 (H2A.Z variant histone 2); PARTICIPATES IN systemic lupus erythematosus pathway; INTERACTS WITH (+)-schisandrin B; tetrachloromethane.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: histone H2A.V-like; LOC498894; RGD1560813; similar to H2A histone family, member V isoform 1
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81882,884,679 - 82,885,311 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1882,833,810 - 82,885,281 (-)EnsemblGRCr8
mRatBN7.21880,609,863 - 80,610,522 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1880,609,861 - 80,610,556 (-)EnsemblmRatBN7.2
Rnor_6.01884,443,542 - 84,444,209 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1884,443,531 - 84,444,218 (-)Ensemblrn6Rnor6.0
Rnor_5.01883,502,912 - 83,503,579 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41883,984,263 - 83,984,649 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1879,191,852 - 79,192,519 (-)NCBICelera
Cytogenetic Map18q13NCBI
JBrowse:




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

Biological Process

Cellular Component
chromosome  (IEA)
nucleosome  (IBA,IEA)
nucleus  (IBA,IEA)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in H2az2l3
6 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:31
Count of miRNA genes:31
Interacting mature miRNAs:31
Transcripts:ENSRNOT00000018214
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331733Bp233Blood pressure QTL 2333.97196arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182507112683910656Rat
9589041Epfw12Epididymal fat weight QTL 1217.080.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)184891573786134022Rat
2303584Gluco55Glucose level QTL 552blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)185079521286134022Rat
8694432Bw165Body weight QTL 1653.810.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)184891573786134022Rat
1358193Emca2Estrogen-induced mammary cancer QTL 21.6mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)186584644786134022Rat
1331730Scl27Serum cholesterol level QTL 273.826blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)185449080186134022Rat
1598832Glom11Glomerulus QTL 112.9kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)185326667186134022Rat
1331741Bp232Blood pressure QTL 2323.59112arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182349405785487725Rat
1600373Mamtr6Mammary tumor resistance QTL 6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)181955353285493247Rat
1331770Bp234Blood pressure QTL 2343.807arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)184562030686134022Rat
2303571Bw92Body weight QTL 923body mass (VT:0001259)body weight (CMO:0000012)185079521286134022Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181206648285493247Rat
2303120Mamtr8Mammary tumor resistance QTL 80.001mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)183161050585493247Rat
631834Sach3Saccharin preference QTL 33.90.01consumption behavior trait (VT:0002069)calculated saccharin drink intake volume (CMO:0001600)183857591983575919Rat
738008Hcar14Hepatocarcinoma resistance QTL 144.3liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion number (CMO:0001462)185782524385493247Rat
724542Kidm2Kidney mass QTL 22.6kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)186144685386134022Rat
61367Iddm4Insulin dependent diabetes mellitus QTL 42.330.0074blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)184046238385462383Rat
6893683Bw110Body weight QTL 1102.70.002body mass (VT:0001259)body weight (CMO:0000012)184562030686134022Rat
8694366Abfw8Abdominal fat weight QTL 86.380.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)184891573786134022Rat
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181206648285493247Rat
70172Eae15Experimental allergic encephalomyelitis QTL 150.001nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)187948431184129249Rat
1331754Bp230Blood pressure QTL 2304.61609arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181564228086134022Rat
7794793Mcs34Mammary carcinoma susceptibility QTL 341.54mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)186563556785897775Rat

Markers in Region
STS-W72744  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23105,557,304 - 105,557,425 (+)MAPPERmRatBN7.2
mRatBN7.21880,610,266 - 80,610,384 (+)MAPPERmRatBN7.2
Rnor_6.01884,443,946 - 84,444,063NCBIRnor6.0
Rnor_6.03110,362,161 - 110,362,281NCBIRnor6.0
Rnor_5.01883,503,316 - 83,503,433UniSTSRnor5.0
Rnor_5.03116,906,812 - 116,906,932UniSTSRnor5.0
RGSC_v3.43105,056,989 - 105,057,109UniSTSRGSC3.4
RGSC_v3.41883,984,428 - 83,984,545UniSTSRGSC3.4
Celera1879,192,256 - 79,192,373UniSTS
Celera3104,474,311 - 104,474,431UniSTS
Cytogenetic Map18q13UniSTS
Cytogenetic Map14q21UniSTS
Cytogenetic Map3q35UniSTS


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 12 66 156 90 89 58 80 58 6 344 180 12 134 82 93 31 13 13

Sequence


Ensembl Acc Id: ENSRNOT00000018214
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1882,877,678 - 82,885,281 (-)Ensembl
mRatBN7.2 Ensembl1880,609,861 - 80,610,556 (-)Ensembl
Rnor_6.0 Ensembl1884,443,531 - 84,444,218 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000105158   ⟹   ENSRNOP00000107265
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1882,833,810 - 82,885,281 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000107923   ⟹   ENSRNOP00000111315
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1882,854,300 - 82,885,281 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000116280   ⟹   ENSRNOP00000109032
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1882,854,301 - 82,885,281 (-)Ensembl
RefSeq Acc Id: XM_003751821   ⟹   XP_003751869
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81882,884,679 - 82,885,311 (-)NCBI
mRatBN7.21880,609,863 - 80,610,522 (-)NCBI
Rnor_6.01884,443,542 - 84,444,209 (-)NCBI
Rnor_5.01883,502,912 - 83,503,579 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_003751869 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000013919
  ENSRNOP00000079917
  ENSRNOP00000079917.1
  ENSRNOP00000107265.1
  ENSRNOP00000109032.1
  ENSRNOP00000111315.1
RefSeq Acc Id: XP_003751869   ⟸   XM_003751821
- UniProtKB: A0A8I5ZP51 (UniProtKB/TrEMBL),   A0A0A0MXW3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000111315   ⟸   ENSRNOT00000107923
Ensembl Acc Id: ENSRNOP00000107265   ⟸   ENSRNOT00000105158
Ensembl Acc Id: ENSRNOP00000109032   ⟸   ENSRNOT00000116280
Protein Domains
Histone H2A C-terminal   Histone H2A/H2B/H3

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:1560813 AgrOrtholog
BioCyc Gene G2FUF-6709 BioCyc
Ensembl Genes ENSRNOG00000010306 UniProtKB/TrEMBL
  ENSRNOG00000013622 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013919 UniProtKB/TrEMBL
  ENSRNOT00000018214 ENTREZGENE
  ENSRNOT00000018214.7 UniProtKB/TrEMBL
  ENSRNOT00000105158.2 UniProtKB/TrEMBL
  ENSRNOT00000107923.2 UniProtKB/TrEMBL
  ENSRNOT00000116280.2 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
  Histone_H2A_CS UniProtKB/TrEMBL
KEGG Report rno:498894 UniProtKB/TrEMBL
NCBI Gene 498894 ENTREZGENE
PANTHER PTHR23430 UniProtKB/TrEMBL
Pfam Histone UniProtKB/TrEMBL
  Histone_H2A_C UniProtKB/TrEMBL
PhenoGen H2az2l3 PhenoGen
PRINTS HISTONEH2A UniProtKB/TrEMBL
PROSITE HISTONE_H2A UniProtKB/TrEMBL
RatGTEx ENSRNOG00000010306 RatGTEx
  ENSRNOG00000013622 RatGTEx
SMART H2A UniProtKB/TrEMBL
Superfamily-SCOP SSF47113 UniProtKB/TrEMBL
UniProt A0A0A0MXW3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZP51 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-19 H2az2l3  H2A.Z histone variant 2 like 3  RGD1560813  similar to H2A histone family, member V isoform 1  Symbol and Name Changed 1299863 APPROVED
2008-04-30 RGD1560813  similar to H2A histone family, member V isoform 1   RGD1560813_predicted  similar to H2A histone family, member V isoform 1 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1560813_predicted  similar to H2A histone family, member V isoform 1 (predicted)  LOC498894  similar to H2A histone family, member V isoform 1  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC498894  similar to H2A histone family, member V isoform 1      Symbol and Name status set to provisional 70820 PROVISIONAL