Human Gene LRRC47 (uc001akx.1) Description and Page Index
  Description: Homo sapiens leucine rich repeat containing 47 (LRRC47), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:3,696,784-3,713,068 Size: 16,285 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr1:3,697,652-3,713,040 Size: 15,389 Coding Exon Count: 7 

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 (chr1:3,696,784-3,713,068)mRNA (may differ from genome)Protein (583 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: LRC47_HUMAN
DESCRIPTION: RecName: Full=Leucine-rich repeat-containing protein 47;
INTERACTION: P04591:gag (xeno); NbExp=2; IntAct=EBI-2509921, EBI-6179727;
SIMILARITY: Contains 7 LRR (leucine-rich) repeats.

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

+  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: 42.67 RPKM in Muscle - Skeletal
Total median expression: 1138.18 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 -11.5028-0.411 Picture PostScript Text
3' UTR -292.80868-0.337 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
IPR005146 - B3/B4_tRNA-bd
IPR001611 - Leu-rich_rpt
IPR025875 - Leu-rich_rpt_2_copies
IPR003591 - Leu-rich_rpt_typical-subtyp

Pfam Domains:
PF00560 - Leucine Rich Repeat
PF03483 - B3/4 domain
PF12799 - Leucine Rich repeats (2 copies)
PF13516 - Leucine Rich repeat
PF13855 - Leucine rich repeat

SCOP Domains:
52047 - RNI-like
52058 - L domain-like
52075 - Outer arm dynein light chain 1

ModBase Predicted Comparative 3D Structure on Q8N1G4
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 orthologGenome BrowserNo ortholog
Gene Details   Gene Details 
Gene Sorter   Gene Sorter 
  Ensembl WormBase 
  Protein Sequence Protein Sequence 
  Alignment Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0004826 phenylalanine-tRNA ligase activity

Biological Process:
GO:0006432 phenylalanyl-tRNA aminoacylation

Cellular Component:
GO:0009328 phenylalanine-tRNA ligase complex


-  Descriptions from all associated GenBank mRNAs
  JD301600 - Sequence 282624 from Patent EP1572962.
AB033011 - Homo sapiens mRNA for KIAA1185 protein, partial cds.
BC031301 - Homo sapiens leucine rich repeat containing 47, mRNA (cDNA clone MGC:39317 IMAGE:4330114), complete cds.
BC012300 - Homo sapiens leucine rich repeat containing 47, mRNA (cDNA clone IMAGE:3451294), with apparent retained intron.
JD454225 - Sequence 435249 from Patent EP1572962.
JD316371 - Sequence 297395 from Patent EP1572962.
JD046276 - Sequence 27300 from Patent EP1572962.
JD500811 - Sequence 481835 from Patent EP1572962.
JD144984 - Sequence 126008 from Patent EP1572962.
JD506012 - Sequence 487036 from Patent EP1572962.
JD270801 - Sequence 251825 from Patent EP1572962.
JD074164 - Sequence 55188 from Patent EP1572962.
JD074163 - Sequence 55187 from Patent EP1572962.
JD488510 - Sequence 469534 from Patent EP1572962.
JD331057 - Sequence 312081 from Patent EP1572962.
JD101154 - Sequence 82178 from Patent EP1572962.
JD195149 - Sequence 176173 from Patent EP1572962.
JD346288 - Sequence 327312 from Patent EP1572962.
JD180454 - Sequence 161478 from Patent EP1572962.
JD535528 - Sequence 516552 from Patent EP1572962.
JD151681 - Sequence 132705 from Patent EP1572962.
JD526105 - Sequence 507129 from Patent EP1572962.
JD352853 - Sequence 333877 from Patent EP1572962.
JD367683 - Sequence 348707 from Patent EP1572962.
JD542291 - Sequence 523315 from Patent EP1572962.
JD542290 - Sequence 523314 from Patent EP1572962.
JD141774 - Sequence 122798 from Patent EP1572962.
DQ585862 - Homo sapiens piRNA piR-52974, complete sequence.

-  Other Names for This Gene
  Alternate Gene Symbols: KIAA1185, LRC47_HUMAN, NM_020710, NP_065761, Q8N1G4, Q9ULN5
UCSC ID: uc001akx.1
RefSeq Accession: NM_020710
Protein: Q8N1G4 (aka LRC47_HUMAN)
CCDS: CCDS51.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_020710.2
exon count: 7CDS single in 3' UTR: no RNA size: 2694
ORF size: 1752CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3038.00frame shift in genome: no % Coverage: 98.29
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.