Human Gene PACRGL (uc010iek.3) Description and Page Index
  Description: Homo sapiens PARK2 co-regulated-like (PACRGL), transcript variant 3, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr4:20,702,036-20,729,980 Size: 27,945 Total Exon Count: 9 Strand: +
Coding Region
   Position: hg19 chr4:20,706,105-20,728,964 Size: 22,860 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr4:20,702,036-20,729,980)mRNA (may differ from genome)Protein (248 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCLynxMGIneXtProtPubMed
Stanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: PACRL_HUMAN
DESCRIPTION: RecName: Full=PACRG-like protein;

-  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: 17.38 RPKM in Testis
Total median expression: 159.14 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 -180.70391-0.462 Picture PostScript Text
3' UTR -249.671016-0.246 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
IPR011989 - ARM-like
IPR016024 - ARM-type_fold
IPR019399 - Parkin_co-regulated_protein

Pfam Domains:
PF10274 - Parkin co-regulated protein

SCOP Domains:
48371 - ARM repeat

ModBase Predicted Comparative 3D Structure on Q8N7B6
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 Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding


-  Descriptions from all associated GenBank mRNAs
  AK098692 - Homo sapiens cDNA FLJ25826 fis, clone TST08017.
AK307786 - Homo sapiens cDNA, FLJ97734.
AK315482 - Homo sapiens cDNA, FLJ96545.
AK307355 - Homo sapiens cDNA, FLJ97303.
AK294077 - Homo sapiens cDNA FLJ59675 complete cds.
AK297556 - Homo sapiens cDNA FLJ55110 complete cds.
AK291544 - Homo sapiens cDNA FLJ78581 complete cds.
AK307092 - Homo sapiens cDNA, FLJ97040.
BC023002 - Homo sapiens PARK2 co-regulated-like, mRNA (cDNA clone MGC:29898 IMAGE:4992139), complete cds.
JD342788 - Sequence 323812 from Patent EP1572962.
JD328093 - Sequence 309117 from Patent EP1572962.
JD541262 - Sequence 522286 from Patent EP1572962.
JD128328 - Sequence 109352 from Patent EP1572962.
JD139664 - Sequence 120688 from Patent EP1572962.
JD282318 - Sequence 263342 from Patent EP1572962.
JD070602 - Sequence 51626 from Patent EP1572962.
JD398834 - Sequence 379858 from Patent EP1572962.
JD528900 - Sequence 509924 from Patent EP1572962.
JD295452 - Sequence 276476 from Patent EP1572962.
JD295884 - Sequence 276908 from Patent EP1572962.
JD493433 - Sequence 474457 from Patent EP1572962.
JD480465 - Sequence 461489 from Patent EP1572962.
JD221640 - Sequence 202664 from Patent EP1572962.
JD374364 - Sequence 355388 from Patent EP1572962.
JD495870 - Sequence 476894 from Patent EP1572962.
JD410409 - Sequence 391433 from Patent EP1572962.
JD381938 - Sequence 362962 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B2RDB9, B4DMN7, C4orf28, NM_001258345, NP_001245274, PACRL_HUMAN, Q8N7B6, Q8TBA8
UCSC ID: uc010iek.3
RefSeq Accession: NM_001258345
Protein: Q8N7B6 (aka PACRL_HUMAN)
CCDS: CCDS58895.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001258345.1
exon count: 9CDS single in 3' UTR: no RNA size: 2171
ORF size: 747CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1694.00frame shift in genome: no % Coverage: 99.22
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: yes # AT/AC introns 0
selenocysteine: no end bleed into intron: 1165# 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.