Human Gene LINC01587 (uc003gii.3)
  Description: Homo sapiens chromosome 4 open reading frame 6 (LINC01587), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr4:5,526,883-5,529,527 Size: 2,645 Total Exon Count: 3 Strand: +
Coding Region
   Position: hg19 chr4:5,527,058-5,528,058 Size: 1,001 Coding Exon Count: 2 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr4:5,526,883-5,529,527)mRNA (may differ from genome)Protein (93 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblExonPrimerGeneCardsGeneNetworkHPRDLynx
MalacardsMGIneXtProtPubMedUniProtKB

-  Comments and Description Text from UniProtKB
  ID: CD006_HUMAN
DESCRIPTION: RecName: Full=Uncharacterized protein C4orf6; AltName: Full=Protein AC1;
TISSUE SPECIFICITY: Expressed in neuroblastoma.

-  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: LINC01587
Diseases sorted by gene-association score: neuroblastoma (7)

+  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: 0.45 RPKM in Testis
Total median expression: 1.80 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 -29.80175-0.170 Picture PostScript Text
3' UTR -124.04415-0.299 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
  ModBase Predicted Comparative 3D Structure on Q99440
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 orthologNo orthologNo orthologNo orthologNo ortholog
      
      
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0007399 nervous system development


-  Descriptions from all associated GenBank mRNAs
  D82070 - Homo sapiens aC1 mRNA, complete cds.
JD492965 - Sequence 473989 from Patent EP1572962.
BC117444 - Homo sapiens chromosome 4 open reading frame 6, mRNA (cDNA clone MGC:151053 IMAGE:40125995), complete cds.
BC117446 - Homo sapiens chromosome 4 open reading frame 6, mRNA (cDNA clone MGC:151055 IMAGE:40125997), complete cds.
JD039377 - Sequence 20401 from Patent EP1572962.
JD042267 - Sequence 23291 from Patent EP1572962.
JD204246 - Sequence 185270 from Patent EP1572962.
HQ258562 - Synthetic construct Homo sapiens clone IMAGE:100073072 chromosome 4 open reading frame 6 (C4orf6) gene, encodes complete protein.
KJ892934 - Synthetic construct Homo sapiens clone ccsbBroadEn_02328 C4orf6 gene, encodes complete protein.
JD334043 - Sequence 315067 from Patent EP1572962.
JD290543 - Sequence 271567 from Patent EP1572962.
JD062987 - Sequence 44011 from Patent EP1572962.
JD313545 - Sequence 294569 from Patent EP1572962.
JD483137 - Sequence 464161 from Patent EP1572962.
JD267054 - Sequence 248078 from Patent EP1572962.
JD172649 - Sequence 153673 from Patent EP1572962.
JD099092 - Sequence 80116 from Patent EP1572962.
JD079833 - Sequence 60857 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: AC1, C4orf6, CD006_HUMAN, NM_005750, NP_005741, Q17R65, Q99440
UCSC ID: uc003gii.3
RefSeq Accession: NM_005750
Protein: Q99440 (aka CD006_HUMAN or CD06_HUMAN)
CCDS: CCDS3381.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_005750.2
exon count: 3CDS single in 3' UTR: no RNA size: 888
ORF size: 282CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 477.00frame shift in genome: no % Coverage: 98.20
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.