Human Gene BRMS1 (ENST00000359957.8_8) from GENCODE V47lift37
  Description: BRMS1 transcriptional repressor and anoikis regulator, transcript variant 1 (from RefSeq NM_015399.4)
Gencode Transcript: ENST00000359957.8_8
Gencode Gene: ENSG00000174744.14_13
Transcript (Including UTRs)
   Position: hg19 chr11:66,104,810-66,112,575 Size: 7,766 Total Exon Count: 10 Strand: -
Coding Region
   Position: hg19 chr11:66,105,353-66,109,705 Size: 4,353 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:66,104,810-66,112,575)mRNA (may differ from genome)Protein (246 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: BRMS1_HUMAN
DESCRIPTION: RecName: Full=Breast cancer metastasis-suppressor 1;
FUNCTION: Transcriptional repressor. Down-regulates transcription activation by NF-kappa-B by promoting the deacetylation of RELA at 'Lys-310'. Promotes HDAC1 binding to promoter regions. Down- regulates expression of anti-apoptotic genes that are controlled by NF-kappa-B. Promotes apoptosis in cells that have inadequate adherence to a substrate, a process called anoikis, and may thereby inhibit metastasis. May be a mediator of metastasis suppression in breast carcinoma.
SUBUNIT: Interacts with SNX6, HDAC1 and RELA. Interacts with ARID4A. Identified in mSin3A corepressor complexes together with SIN3A, SIN3B, RBBP4, RBBP7, SAP30, SUDS3, ARID4A, HDAC1 and HDAC2.
INTERACTION: O75190:DNAJB6; NbExp=2; IntAct=EBI-714781, EBI-1053164; Q13547:HDAC1; NbExp=3; IntAct=EBI-714781, EBI-301834; Q92769:HDAC2; NbExp=3; IntAct=EBI-714781, EBI-301821; P56524:HDAC4; NbExp=2; IntAct=EBI-714781, EBI-308629; Q9UQL6:HDAC5; NbExp=2; IntAct=EBI-714781, EBI-715576; Q9UBN7:HDAC6; NbExp=2; IntAct=EBI-714781, EBI-301697; Q13287:NMI; NbExp=2; IntAct=EBI-714781, EBI-372942; Q969G3:SMARCE1; NbExp=2; IntAct=EBI-714781, EBI-455078; Q9H7L9:SUDS3; NbExp=2; IntAct=EBI-714781, EBI-540496;
SUBCELLULAR LOCATION: Nucleus. Cytoplasm. Note=Predominantly nuclear.
TISSUE SPECIFICITY: Expression levels are higher in term placentas than in early placentas. Low levels of expression observed in normal pregnancies and in molar pregnancies.
SIMILARITY: Belongs to the BRMS1 family.
WEB RESOURCE: Name=Atlas of Genetics and Cytogenetics in Oncology and Haematology; URL="http://atlasgeneticsoncology.org//Genes/BRMS1ID841ch11q13.html";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: BRMS1
Diseases sorted by gene-association score: breast cancer (12), melanoma (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 31.11 RPKM in Spleen
Total median expression: 862.65 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -56.90140-0.406 Picture PostScript Text
3' UTR -223.90543-0.412 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR013907 - Sds3

Pfam Domains:
PF08598 - Sds3-like

SCOP Domains:
46955 - Putative DNA-binding domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2XUS - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q9HCU9
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004407 histone deacetylase activity
GO:0005515 protein binding
GO:0042826 histone deacetylase binding
GO:0051059 NF-kappaB binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006915 apoptotic process
GO:0016575 histone deacetylation
GO:0032088 negative regulation of NF-kappaB transcription factor activity
GO:0042981 regulation of apoptotic process
GO:0045892 negative regulation of transcription, DNA-templated
GO:0090312 positive regulation of protein deacetylation
GO:2000210 positive regulation of anoikis

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0070822 Sin3-type complex


-  Descriptions from all associated GenBank mRNAs
  AL050008 - Homo sapiens mRNA; cDNA DKFZp564A063 (from clone DKFZp564A063).
BC009834 - Homo sapiens breast cancer metastasis suppressor 1, mRNA (cDNA clone MGC:15101 IMAGE:3959486), complete cds.
AF159141 - Homo sapiens breast cancer metastasis-suppressor 1 (BRMS1) mRNA, complete cds.
JD501035 - Sequence 482059 from Patent EP1572962.
JD553046 - Sequence 534070 from Patent EP1572962.
JD081785 - Sequence 62809 from Patent EP1572962.
JD062188 - Sequence 43212 from Patent EP1572962.
JD386613 - Sequence 367637 from Patent EP1572962.
JD519614 - Sequence 500638 from Patent EP1572962.
JD251451 - Sequence 232475 from Patent EP1572962.
JD444365 - Sequence 425389 from Patent EP1572962.
JD477295 - Sequence 458319 from Patent EP1572962.
JD474160 - Sequence 455184 from Patent EP1572962.
AF147350 - Homo sapiens full length insert cDNA clone YB40E08.
JD136929 - Sequence 117953 from Patent EP1572962.
AK310991 - Homo sapiens cDNA, FLJ18033.
CR457173 - Homo sapiens full open reading frame cDNA clone RZPDo834D098D for gene BRMS1, breast cancer metastasis suppressor 1; complete cds, incl. stopcodon.
KJ898560 - Synthetic construct Homo sapiens clone ccsbBroadEn_07954 BRMS1 gene, encodes complete protein.
AK313773 - Homo sapiens cDNA, FLJ94378, Homo sapiens breast cancer metastasis suppressor 1 (BRMS1), mRNA.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9HCU9 (Reactome details) participates in the following event(s):

R-HSA-3769447 HDAC1/2 containing-complexes deacetylate histones
R-HSA-3214815 HDACs deacetylate histones
R-HSA-3247509 Chromatin modifying enzymes
R-HSA-4839726 Chromatin organization

-  Other Names for This Gene
  Alternate Gene Symbols: BRMS1_HUMAN, ENST00000359957.1, ENST00000359957.2, ENST00000359957.3, ENST00000359957.4, ENST00000359957.5, ENST00000359957.6, ENST00000359957.7, NM_015399, Q6IAI2, Q9HCU9, uc318bht.1, uc318bht.2
UCSC ID: ENST00000359957.8_8
RefSeq Accession: NM_015399.4
Protein: Q9HCU9 (aka BRMS1_HUMAN or BRM1_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.