Human Gene SMC4 (uc003fdf.1)
  Description: Homo sapiens structural maintenance of chromosomes 4 (SMC4), transcript variant 2, mRNA.
RefSeq Summary (NM_005496): This gene belongs to the 'structural maintenance of chromosomes' (SMC) gene family. Members of this gene family play a role in two changes in chromosome structure during mitotic segregation of chromosomes- chromosome condensation and sister chromatid cohesion. The protein encoded by this gene is likely a subunit of the 13S condensin complex, which is involved in chromosome condensation. A pseudogene related to this gene is located on chromosome 2. [provided by RefSeq, Jun 2016].
Transcript (Including UTRs)
   Position: hg19 chr3:160,117,430-160,132,305 Size: 14,876 Total Exon Count: 9 Strand: +


Page IndexSequence and LinksPrimersGenetic AssociationsMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionOther SpeciesmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:160,117,430-160,132,305)mRNA (may differ from genome)No protein
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
EnsemblEntrez GeneExonPrimerGeneNetworkH-INVHGNC
LynxMalacardsOMIMPubMedWikipediaBioGrid CRISPR DB

-  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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): SMC4
CDC HuGE Published Literature: SMC4

-  MalaCards Disease Associations
  MalaCards Gene Search: SMC4
Diseases sorted by gene-association score: pleural empyema (6)

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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 44.75 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 271.27 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.

-  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
      
      
      
      
      

-  Descriptions from all associated GenBank mRNAs
  BC106033 - Homo sapiens structural maintenance of chromosomes 4, mRNA (cDNA clone IMAGE:4996934), partial cds.
AK002200 - Homo sapiens cDNA FLJ11338 fis, clone PLACE1010720, highly similar to Homo sapiens mRNA for chromosome-associated polypeptide-C.
BC070161 - Homo sapiens structural maintenance of chromosomes 4, mRNA (cDNA clone IMAGE:4252738), partial cds.
AK225437 - Homo sapiens mRNA for SMC4L1 protein variant, clone: HRC12916.
AK315070 - Homo sapiens cDNA, FLJ96024.
AK128143 - Homo sapiens cDNA FLJ46264 fis, clone TESTI4026080, highly similar to Structural maintenance of chromosomes 4-like 1 protein.
AK307508 - Homo sapiens cDNA, FLJ97456.
AB019987 - Homo sapiens hCAP-C mRNA for chromosome-associated polypeptide-C, complete cds.
BC065259 - Homo sapiens structural maintenance of chromosomes 4, mRNA (cDNA clone IMAGE:6145405), partial cds.
BC001557 - Homo sapiens structural maintenance of chromosomes 4, mRNA (cDNA clone IMAGE:3460137), partial cds.
AL833949 - Homo sapiens mRNA; cDNA DKFZp434N2050 (from clone DKFZp434N2050).
AL136877 - Homo sapiens mRNA; cDNA DKFZp434F205 (from clone DKFZp434F205).
BC146370 - Synthetic construct Homo sapiens clone IMAGE:100015108, MGC:180205 structural maintenance of chromosomes 4 (SMC4) mRNA, encodes complete protein.
BC148796 - Synthetic construct Homo sapiens clone IMAGE:100015924, MGC:183218 structural maintenance of chromosomes 4 (SMC4) mRNA, encodes complete protein.
AB527221 - Synthetic construct DNA, clone: pF1KB7320, Homo sapiens SMC4 gene for structural maintenance of chromosomes 4, without stop codon, in Flexi system.
AF092564 - Homo sapiens chromosome-associated protein-C (hCAP-C) mRNA, partial cds.
AK122939 - Homo sapiens cDNA FLJ16648 fis, clone TESTI4035508, highly similar to Structural maintenance of chromosomes 4-like 1 protein.

-  Other Names for This Gene
  Alternate Gene Symbols: AK002200, NM_005496
UCSC ID: uc003fdf.1
RefSeq Accession: NM_005496

-  Gene Model Information
 
category: nearCoding nonsense-mediated-decay: yes RNA accession: AK002200.1
exon count: 9CDS single in 3' UTR: no RNA size: 1756
ORF size: 0CDS single in intron: no Alignment % ID: 99.89
txCdsPredict score: 1765.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.