Human Gene GOLM2 (uc001ztp.3)
  Description: Homo sapiens cancer susceptibility candidate 4 (GOLM2), transcript variant 1, mRNA.
RefSeq Summary (NM_138423): The increased expression level of this gene is associated with HER-2/neu proto-oncogene overexpression. Amplification and resulting overexpression of this proto-oncogene are found in approximately 30% of human breast and 20% of human ovarian cancers. Alternatively spliced variants encoding different isoforms have been identified for this gene. [provided by RefSeq, Dec 2010].
Transcript (Including UTRs)
   Position: hg19 chr15:44,580,909-44,707,959 Size: 127,051 Total Exon Count: 10 Strand: +
Coding Region
   Position: hg19 chr15:44,581,228-44,705,604 Size: 124,377 Coding Exon Count: 10 

Page IndexSequence and LinksPrimersGene AllelesRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr15:44,580,909-44,707,959)mRNA (may differ from genome)Protein (436 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHPRDLynxMGIPubMedTreefam
UniProtKBBioGrid 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


+  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: 25.53 RPKM in Adrenal Gland
Total median expression: 695.72 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 -164.10319-0.514 Picture PostScript Text
3' UTR -564.192355-0.240 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
IPR026141 - CASC4
IPR026139 - GOLM1/CASC4

ModBase Predicted Comparative 3D Structure on G5E934
FrontTopSide
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 orthologGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Descriptions from all associated GenBank mRNAs
  LF383727 - JP 2014500723-A/191230: Polycomb-Associated Non-Coding RNAs.
BC063480 - Homo sapiens cancer susceptibility candidate 4, mRNA (cDNA clone MGC:74708 IMAGE:5218924), complete cds.
AY358086 - Homo sapiens clone DNA102847 VGFG2573 (UNQ2573) mRNA, complete cds.
AK298564 - Homo sapiens cDNA FLJ53496 complete cds, highly similar to Homo sapiens cancer susceptibility candidate 4 (CASC4), transcript variant 1, mRNA.
AL832333 - Homo sapiens mRNA; cDNA DKFZp451I065 (from clone DKFZp451I065).
AK291026 - Homo sapiens cDNA FLJ77420 complete cds, highly similar to Homo sapiens cancer susceptibility candidate 4 (CASC4), transcript variant 2, mRNA.
AL832840 - Homo sapiens mRNA; cDNA DKFZp667C1825 (from clone DKFZp667C1825).
AK095068 - Homo sapiens cDNA FLJ37749 fis, clone BRHIP2023229.
BC041786 - Homo sapiens cancer susceptibility candidate 4, mRNA (cDNA clone IMAGE:3961822).
MA619304 - JP 2018138019-A/191230: Polycomb-Associated Non-Coding RNAs.
BC012124 - Homo sapiens cancer susceptibility candidate 4, mRNA (cDNA clone IMAGE:4564707), complete cds.
JD266587 - Sequence 247611 from Patent EP1572962.
AK098265 - Homo sapiens cDNA FLJ40946 fis, clone UTERU2009435.
JD294620 - Sequence 275644 from Patent EP1572962.
JD396214 - Sequence 377238 from Patent EP1572962.
JD208321 - Sequence 189345 from Patent EP1572962.
CU680228 - Synthetic construct Homo sapiens gateway clone IMAGE:100017553 5' read CASC4 mRNA.
KJ903624 - Synthetic construct Homo sapiens clone ccsbBroadEn_13018 CASC4 gene, encodes complete protein.
CU687742 - Synthetic construct Homo sapiens gateway clone IMAGE:100021801 5' read CASC4 mRNA.
HQ448055 - Synthetic construct Homo sapiens clone IMAGE:100071434; CCSB012141_01 cancer susceptibility candidate 4 (CASC4) gene, encodes complete protein.
KJ903625 - Synthetic construct Homo sapiens clone ccsbBroadEn_13019 CASC4 gene, encodes complete protein.
LF349067 - JP 2014500723-A/156570: Polycomb-Associated Non-Coding RNAs.
LF349070 - JP 2014500723-A/156573: Polycomb-Associated Non-Coding RNAs.
LF349071 - JP 2014500723-A/156574: Polycomb-Associated Non-Coding RNAs.
LF349072 - JP 2014500723-A/156575: Polycomb-Associated Non-Coding RNAs.
LF349073 - JP 2014500723-A/156576: Polycomb-Associated Non-Coding RNAs.
LF349074 - JP 2014500723-A/156577: Polycomb-Associated Non-Coding RNAs.
LF349075 - JP 2014500723-A/156578: Polycomb-Associated Non-Coding RNAs.
MA584644 - JP 2018138019-A/156570: Polycomb-Associated Non-Coding RNAs.
MA584647 - JP 2018138019-A/156573: Polycomb-Associated Non-Coding RNAs.
MA584648 - JP 2018138019-A/156574: Polycomb-Associated Non-Coding RNAs.
MA584649 - JP 2018138019-A/156575: Polycomb-Associated Non-Coding RNAs.
MA584650 - JP 2018138019-A/156576: Polycomb-Associated Non-Coding RNAs.
MA584651 - JP 2018138019-A/156577: Polycomb-Associated Non-Coding RNAs.
MA584652 - JP 2018138019-A/156578: Polycomb-Associated Non-Coding RNAs.
LF349080 - JP 2014500723-A/156583: Polycomb-Associated Non-Coding RNAs.
LF349081 - JP 2014500723-A/156584: Polycomb-Associated Non-Coding RNAs.
JD506720 - Sequence 487744 from Patent EP1572962.
JD226101 - Sequence 207125 from Patent EP1572962.
JD224436 - Sequence 205460 from Patent EP1572962.
AK022565 - Homo sapiens cDNA FLJ12503 fis, clone NT2RM2001695, highly similar to Homo sapiens clone H63 unknown mRNA.
AF103804 - Homo sapiens clone H63 unknown mRNA.
JD321974 - Sequence 302998 from Patent EP1572962.
JD284875 - Sequence 265899 from Patent EP1572962.
JD357853 - Sequence 338877 from Patent EP1572962.
JD532135 - Sequence 513159 from Patent EP1572962.
JD508267 - Sequence 489291 from Patent EP1572962.
JD258311 - Sequence 239335 from Patent EP1572962.
JD246458 - Sequence 227482 from Patent EP1572962.
JD449120 - Sequence 430144 from Patent EP1572962.
JD369261 - Sequence 350285 from Patent EP1572962.
JD375878 - Sequence 356902 from Patent EP1572962.
JD498888 - Sequence 479912 from Patent EP1572962.
JD024130 - Sequence 5154 from Patent EP1572962.
JD374681 - Sequence 355705 from Patent EP1572962.
JD027638 - Sequence 8662 from Patent EP1572962.
JD490159 - Sequence 471183 from Patent EP1572962.
JD019236 - Sequence 260 from Patent EP1572962.
JD185074 - Sequence 166098 from Patent EP1572962.
JD022265 - Sequence 3289 from Patent EP1572962.
JD034536 - Sequence 15560 from Patent EP1572962.
JD202778 - Sequence 183802 from Patent EP1572962.
MA584657 - JP 2018138019-A/156583: Polycomb-Associated Non-Coding RNAs.
MA584658 - JP 2018138019-A/156584: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: CASC4, G5E934, G5E934_HUMAN, hCG_2003796, NM_138423, NP_612432
UCSC ID: uc001ztp.3
RefSeq Accession: NM_138423
Protein: G5E934 CCDS: CCDS10108.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_138423.3
exon count: 10CDS single in 3' UTR: no RNA size: 3985
ORF size: 1311CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2751.00frame 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.