Human Gene ALX1 (ENST00000316824.4_4) from GENCODE V47lift37
  Description: ALX homeobox 1 (from RefSeq NM_006982.3)
Gencode Transcript: ENST00000316824.4_4
Gencode Gene: ENSG00000180318.4_7
Transcript (Including UTRs)
   Position: hg19 chr12:85,673,998-85,695,562 Size: 21,565 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr12:85,674,040-85,695,253 Size: 21,214 Coding Exon Count: 4 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureOther SpeciesmRNA DescriptionsOther Names
Model InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:85,673,998-85,695,562)mRNA (may differ from genome)Protein (326 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid 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


-  MalaCards Disease Associations
  MalaCards Gene Search: ALX1
Diseases sorted by gene-association score: frontonasal dysplasia 3* (1419), frontonasal dysplasia-severe microphthalmia-severe facial clefting syndrome* (400), craniofrontonasal dysplasia (8), neural tube defects (3)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 2.05 RPKM in Fallopian Tube
Total median expression: 9.35 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 -8.6042-0.205 Picture PostScript Text
3' UTR -45.17309-0.146 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.

-  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 DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Descriptions from all associated GenBank mRNAs
  U31986 - Human cartilage-specific homeodomain protein Cart-1 mRNA, complete cds.
BC010923 - Homo sapiens ALX homeobox 1, mRNA (cDNA clone MGC:13497 IMAGE:4278460), complete cds.
EU794597 - Homo sapiens epididymis luminal protein 23 (HEL23) mRNA, complete cds.
KJ897807 - Synthetic construct Homo sapiens clone ccsbBroadEn_07201 ALX1 gene, encodes complete protein.
JD456198 - Sequence 437222 from Patent EP1572962.
JD224281 - Sequence 205305 from Patent EP1572962.
JD083541 - Sequence 64565 from Patent EP1572962.
JD486911 - Sequence 467935 from Patent EP1572962.
JD515853 - Sequence 496877 from Patent EP1572962.
JD043307 - Sequence 24331 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: CART1 , ENST00000316824.1, ENST00000316824.2, ENST00000316824.3, hCG_26534 , HEL23 , NM_006982, uc317qcj.1, uc317qcj.2, V9HWA7, V9HWA7_HUMAN
UCSC ID: ENST00000316824.4_4
RefSeq Accession: NM_006982.3

-  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.