Hmgn2-ps3 (high mobility group nucleosomal binding domain 2, pseudogene 3) - Rat Genome Database

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Gene: Hmgn2-ps3 (high mobility group nucleosomal binding domain 2, pseudogene 3) Rattus norvegicus
Analyze
Symbol: Hmgn2-ps3 (Ensembl: AABR07053402.1)
Name: high mobility group nucleosomal binding domain 2, pseudogene 3 (Ensembl:high mobility group nucleosomal binding domain 2, pseudo 3)
RGD ID: 2323648
Description: Predicted to enable nucleosomal DNA binding activity. Predicted to be part of chromatin. Orthologous to human HMGN4 (high mobility group nucleosomal binding domain 4); INTERACTS WITH Cuprizon; 2-methylcholine (ortholog); 4,4'-sulfonyldiphenol (ortholog).
Type: pseudo (Ensembl: protein-coding)
RefSeq Status: INFERRED
Previously known as: high mobility group nucleosomal binding domain 2; high mobility group nucleosomal binding domain 4; Hmgn4; LOC100359546; non-histone chromosomal protein HMG-17-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Alliance Genes
More Info more info ...
Related Functional Gene: Hmgn2  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83120,445,085 - 120,445,345 (-)NCBIGRCr8
mRatBN7.2399,990,743 - 99,991,003 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl399,990,743 - 99,991,003 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.03104,675,173 - 104,675,525 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.03111,260,276 - 111,260,536 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4399,049,807 - 99,050,067 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera398,972,612 - 98,972,964 (-)NCBICelera
Cytogenetic Map3q35NCBI
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
chromatin  (IEA)
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.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Hmgn2-ps3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83120,445,085 - 120,445,345 (-)NCBIGRCr8
mRatBN7.2399,990,743 - 99,991,003 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl399,990,743 - 99,991,003 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.03104,675,173 - 104,675,525 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.03111,260,276 - 111,260,536 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4399,049,807 - 99,050,067 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera398,972,612 - 98,972,964 (-)NCBICelera
Cytogenetic Map3q35NCBI
HMGN4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38626,538,366 - 26,546,933 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl626,538,366 - 26,546,933 (+)EnsemblGRCh38hg38GRCh38
GRCh37626,538,594 - 26,547,161 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36626,646,551 - 26,655,144 (+)NCBINCBI36Build 36hg18NCBI36
Build 34626,646,550 - 26,655,141NCBI
Celera627,767,909 - 27,776,509 (+)NCBICelera
Cytogenetic Map6p22.2NCBI
HuRef626,481,618 - 26,490,233 (+)NCBIHuRef
CHM1_1626,540,663 - 26,549,257 (+)NCBICHM1_1
T2T-CHM13v2.0626,406,761 - 26,415,326 (+)NCBIT2T-CHM13v2.0
Gm20379
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391392,442,597 - 92,445,631 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1392,442,488 - 92,443,691 (+)EnsemblGRCm39 Ensembl
GRCm381392,306,089 - 92,306,337 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1392,305,980 - 92,307,183 (+)EnsemblGRCm38mm10GRCm38
MGSCv371393,076,044 - 93,076,313 (+)NCBIGRCm37MGSCv37mm9NCBIm37
Celera1395,907,874 - 95,908,143 (+)NCBICelera
Cytogenetic Map13C3NCBI
cM Map1347.63NCBI
Hmgn4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955483344,797 - 352,271 (-)NCBIChiLan1.0ChiLan1.0
HMGN4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2541,183,259 - 41,191,334 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1637,184,757 - 37,192,827 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0626,370,768 - 26,378,828 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1627,028,159 - 27,036,326 (+)NCBIpanpan1.1PanPan1.1panPan2
HMGN4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13524,302,520 - 24,310,674 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3524,304,716 - 24,309,841 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3524,159,337 - 24,167,520 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03524,485,900 - 24,494,332 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3524,486,133 - 24,494,325 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13524,267,007 - 24,275,452 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03524,317,968 - 24,327,147 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03525,783,510 - 25,791,939 (+)NCBIUU_Cfam_GSD_1.0
HMGN4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl720,998,957 - 21,003,134 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1720,998,913 - 21,003,138 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2722,161,349 - 22,165,574 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HMGN4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11745,667,759 - 45,676,476 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1745,669,090 - 45,676,295 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604426,473,083 - 26,482,079 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat
724523Tsu1Thymus enlargement suppressive QTL 13.84thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)350437504115638231Rat
724532Cm17Cardiac mass QTL 172heart mass (VT:0007028)calculated heart weight (CMO:0000073)395735366140735366Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)329463235118376539Rat
631649Bp123Blood pressure QTL 1233.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)389772419134772419Rat
631665Bw8Body weight QTL 85.5body mass (VT:0001259)body weight (CMO:0000012)350437042119183768Rat
1582210Bw71Body weight QTL 713.30.0012body mass (VT:0001259)body weight (CMO:0000012)364655305115665732Rat
1582218Bw74Body weight QTL 743.90.0021body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
1582219Bw63Body weight QTL 633.80.001body mass (VT:0001259)body weight (CMO:0000012)396127817115665732Rat
1582221Kidm30Kidney mass QTL 303.50.0008kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)364655305115665732Rat
1582238Bw68Body weight QTL 683.20.0064body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
1582239Epfw1Epididymal fat weight QTL 14.50.0006epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)353184593115665732Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
1582252Sual1Serum uric acid level QTL 13.40.0123blood uric acid amount (VT:0010302)blood uric acid level (CMO:0000501)396127817102200699Rat
1581503Cm58Cardiac mass QTL 582.70.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)343827364121056321Rat
1581546Pur13Proteinuria QTL 132.930.0335urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)378196190146592722Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
2301414Kidm37Kidney mass QTL 370.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)370653097121056321Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
1600376Arunc5Aerobic running capacity QTL 50.21exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)373376539118376539Rat
1300111Rf12Renal function QTL 123.78renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)361017749121056321Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)338192233133483320Rat
1354597Kidm13Kidney mass QTL 132.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)341874578104104347Rat
1354604Bw36Body weight QTL 362.9body mass (VT:0001259)body weight (CMO:0000012)333703347104104347Rat
1354611Despr2Despair related QTL 23.030.0028locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)397084464142084464Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
1358186Ept2Estrogen-induced pituitary tumorigenesis QTL 28.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
2302273Gluco35Glucose level QTL 355.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)380800231114297550Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
2292613Ept16Estrogen-induced pituitary tumorigenesis QTL 168.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)397551417147415807Rat
8694437Bw167Body weight QTL 16722.460.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)391797474136797474Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
12879848Bw181Body weght QTL 1810.015body mass (VT:0001259)body weight (CMO:0000012)370348525121056321Rat


Expression


Sequence


RefSeq Acc Id: XM_039106078   ⟹   XP_038962006
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2399,990,743 - 99,991,093 (-)NCBI
Protein Sequences
Ensembl Protein ENSRNOP00000046982.3
RefSeq Acc Id: XP_038962006   ⟸   XM_039106078

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3Z8T0-F1-model_v2 AlphaFold D3Z8T0 1-94 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:2323648 AgrOrtholog
BioCyc Gene G2FUF-48370 BioCyc
Ensembl Genes ENSRNOG00000029847 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000041537.3 UniProtKB/TrEMBL
InterPro HMGN_fam UniProtKB/TrEMBL
NCBI Gene 100359546 ENTREZGENE
PANTHER HIGH MOBILITY GROUP NUCLEOSOME-BINDING DOMAIN-CONTAINING PROTEIN 4 UniProtKB/TrEMBL
  NONHISTONE CHROMOSOMAL PROTEIN HMG UniProtKB/TrEMBL
Pfam HMG14_17 UniProtKB/TrEMBL
PhenoGen Hmgn2-ps3 PhenoGen
PRINTS NONHISHMG17 UniProtKB/TrEMBL
PROSITE HMG14_17 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000029847 RatGTEx
SMART HMG17 UniProtKB/TrEMBL
UniProt D3Z8T0_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-07-05 Hmgn2-ps3  high mobility group nucleosomal binding domain 2, pseudogene 3  Hmgn2-ps3  high mobility group nucleosomal binding domain 2, pseudogene 3  Type changed (type changed from [protein-coding] to [pseudo]) 629549 APPROVED
2022-07-05 Hmgn2-ps3  high mobility group nucleosomal binding domain 2, pseudogene 3  Hmgn4  high mobility group nucleosomal binding domain 4  Name and Symbol changed 629549 APPROVED
2015-08-11 Hmgn4  high mobility group nucleosomal binding domain 4  LOC100359546  high mobility group nucleosomal binding domain 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-06 LOC100359546  high mobility group nucleosomal binding domain 2      Symbol and Name status set to provisional 70820 PROVISIONAL