Hmgb4l1 (high-mobility group box 4 like 1) - Rat Genome Database

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Gene: Hmgb4l1 (high-mobility group box 4 like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Hmgb4l1 (Ensembl: Hmgb4l2)
Name: high-mobility group box 4 like 1 (Ensembl:high-mobility group box 4 like 2)
RGD ID: 2320188
Description: Predicted to be involved in chromatin remodeling. Predicted to be active in nucleus. Orthologous to human HMGB4 (high mobility group box 4).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: high mobility group protein B4-like; high-mobility group box 4-like; LOC100364877
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X137,622,632 - 137,623,401 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX141,189,826 - 141,190,821 (-)EnsemblGRCr8
mRatBN7.2X132,703,106 - 132,703,824 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX132,703,263 - 132,703,769 (+)EnsemblmRatBN7.2
mRatBN7.2 EnsemblX136,154,060 - 136,154,790 (-)EnsemblmRatBN7.2
Rnor_6.0X158,694,207 - 158,695,021 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X153,320,883 - 153,321,594 (-)NCBIRnor_5.0Rnor_5.0rn5
CeleraX142,238,958 - 142,239,464 (+)NCBICelera
Cytogenetic MapXq36NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

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

Molecular Function
DNA binding  (IEA)

References
Additional References at PubMed
PMID:21873635  


Genomics

Variants

.
Variants in Hmgb4l1
3 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X97528096142528096Rat
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X120028026141353710Rat
1598809Memor15Memory QTL 154.4exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X120028026141353710Rat
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX105359969157758123Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X118973754157758123Rat
2302047Pia34Pristane induced arthritis QTL 345.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1996916163141916163Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
circulatory system
ectoderm
hemolymphoid system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
sensory system
visual system
2 5 11 37 69 49 7 4 18 11 1 1

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_003752159 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000114362   ⟹   ENSRNOP00000090529
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX132,703,263 - 132,703,769 (+)Ensembl
RefSeq Acc Id: XM_003752159   ⟹   XP_003752207
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X137,622,632 - 137,623,401 (+)NCBI
mRatBN7.2X132,703,106 - 132,703,824 (+)NCBI
Rnor_6.0X158,694,207 - 158,695,021 (-)NCBI
Rnor_5.0X153,320,883 - 153,321,594 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_003752207 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000069792
  ENSRNOP00000087272.1
  ENSRNOP00000087940.1
  ENSRNOP00000096827.2
RefSeq Acc Id: XP_003752207   ⟸   XM_003752159
- UniProtKB: A0A8I6ARD2 (UniProtKB/TrEMBL),   A0A8I6A6Y4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000090529   ⟸   ENSRNOT00000114362
Protein Domains
HMG box

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:2320188 AgrOrtholog
BioCyc Gene G2FUF-1007 BioCyc
Ensembl Genes ENSRNOG00000062994 Ensembl
  ENSRNOG00000067113 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00000069692 UniProtKB/TrEMBL
  ENSRNOG00000075877 ENTREZGENE
Ensembl Transcript ENSRNOT00000091859 ENTREZGENE
  ENSRNOT00000103708.2 UniProtKB/TrEMBL
  ENSRNOT00000103726.2 UniProtKB/TrEMBL
  ENSRNOT00000106090.2 UniProtKB/TrEMBL
Gene3D-CATH 1.10.30.10 UniProtKB/TrEMBL
InterPro HMG_box_dom UniProtKB/TrEMBL
  HMG_box_dom_sf UniProtKB/TrEMBL
  HMGB UniProtKB/TrEMBL
KEGG Report rno:100364877 UniProtKB/TrEMBL
NCBI Gene 100364877 ENTREZGENE
PANTHER HIGH MOBILITY GROUP PROTEIN B4 UniProtKB/TrEMBL
  HIGH MOBILITY GROUP PROTEIN DSP1 UniProtKB/TrEMBL
Pfam HMG_box UniProtKB/TrEMBL
  HMG_box_2 UniProtKB/TrEMBL
PhenoGen Hmgb4l1 PhenoGen
PRINTS HIGHMOBLTY12 UniProtKB/TrEMBL
PROSITE HMG_BOX_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000062994 RatGTEx
  ENSRNOG00000067113 RatGTEx
  ENSRNOG00000069692 RatGTEx
  ENSRNOG00000075877 RatGTEx
SMART HMG UniProtKB/TrEMBL
Superfamily-SCOP SSF47095 UniProtKB/TrEMBL
UniProt A0A8I6A6Y4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6ARD2 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A8I6A6V7 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-19 Hmgb4l1  high-mobility group box 4 like 1  LOC100364877  high-mobility group box 4-like  Symbol and Name Changed 1299863 APPROVED
2010-05-05 LOC100364877  high-mobility group box 4-like      Symbol and Name status set to provisional 70820 PROVISIONAL