Human Gene XRCC3 (ENST00000555055.6_7) from GENCODE V47lift37
  Description: X-ray repair cross complementing 3, transcript variant 2 (from RefSeq NM_005432.4)
Gencode Transcript: ENST00000555055.6_7
Gencode Gene: ENSG00000126215.14_11
Transcript (Including UTRs)
   Position: hg19 chr14:104,163,954-104,181,788 Size: 17,835 Total Exon Count: 10 Strand: -
Coding Region
   Position: hg19 chr14:104,165,135-104,177,424 Size: 12,290 Coding Exon Count: 7 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:104,163,954-104,181,788)mRNA (may differ from genome)Protein (346 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: XRCC3
Diseases sorted by gene-association score: melanoma, cutaneous malignant, 6* (904), breast cancer* (136), breast cancer susceptibility, xrcc3-related* (100), xrcc3-related cutaneous malignant melanoma* (100), cardiomyopathy, hypertrophic, 15 (12), xeroderma pigmentosum, variant type (9), mutagen sensitivity (7), xeroderma pigmentosum, group d (7), xeroderma pigmentosum, group g (6), xeroderma pigmentosum, group f (5), diffuse gastric cancer (5), melanoma (3), differentiated thyroid carcinoma (3), lung cancer (2)
* = Manually curated disease association

-  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: 10.43 RPKM in Spleen
Total median expression: 222.52 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 -116.00345-0.336 Picture PostScript Text
3' UTR -567.001181-0.480 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
IPR013632 - DNA_recomb/repair_Rad51_C
IPR016467 - DNA_recomb/repair_RecA-like
IPR020588 - DNA_recomb_RecA/RadB_ATP-bd

Pfam Domains:
PF08423 - Rad51
PF13481 - AAA domain

SCOP Domains:
47789 - C-terminal domain of RNA polymerase alpha subunit
47794 - Rad51 N-terminal domain-like
52540 - P-loop containing nucleoside triphosphate hydrolases

ModBase Predicted Comparative 3D Structure on Q53XC8
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 DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003677 DNA binding
GO:0005524 ATP binding
GO:0008094 DNA-dependent ATPase activity

Biological Process:
GO:0006281 DNA repair
GO:0010033 response to organic substance

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  AK022829 - Homo sapiens cDNA FLJ12767 fis, clone NT2RP2001536, highly similar to DNA-repair protein XRCC3.
BC002949 - Homo sapiens, clone IMAGE:3543559, mRNA, partial cds.
AF035586 - Homo sapiens X-ray repair cross-complementing protein 3 (XRCC3) mRNA, complete cds.
BC011725 - Homo sapiens X-ray repair complementing defective repair in Chinese hamster cells 3, mRNA (cDNA clone MGC:19630 IMAGE:4138588), complete cds.
BC001036 - Homo sapiens X-ray repair complementing defective repair in Chinese hamster cells 3, mRNA (cDNA clone MGC:1435 IMAGE:3139703), complete cds.
LF384891 - JP 2014500723-A/192394: Polycomb-Associated Non-Coding RNAs.
AK126706 - Homo sapiens cDNA FLJ44752 fis, clone BRACE3030057, highly similar to Homo sapiens X-ray repair complementing defective repair in Chinese hamster cells 3 (XRCC3).
AK124498 - Homo sapiens cDNA FLJ42507 fis, clone BRACE2040514, highly similar to DNA-repair protein XRCC3.
AK023646 - Homo sapiens cDNA FLJ13584 fis, clone PLACE1009113, highly similar to DNA-repair protein XRCC3.
BX161398 - human full-length cDNA clone CS0DC014YE11 of Neuroblastoma of Homo sapiens (human).
JD546131 - Sequence 527155 from Patent EP1572962.
JD320869 - Sequence 301893 from Patent EP1572962.
JD115716 - Sequence 96740 from Patent EP1572962.
JD516362 - Sequence 497386 from Patent EP1572962.
JD320868 - Sequence 301892 from Patent EP1572962.
JD151168 - Sequence 132192 from Patent EP1572962.
JD398957 - Sequence 379981 from Patent EP1572962.
JD526879 - Sequence 507903 from Patent EP1572962.
JD076154 - Sequence 57178 from Patent EP1572962.
JD493587 - Sequence 474611 from Patent EP1572962.
JD099738 - Sequence 80762 from Patent EP1572962.
JD400885 - Sequence 381909 from Patent EP1572962.
JD544418 - Sequence 525442 from Patent EP1572962.
JD443901 - Sequence 424925 from Patent EP1572962.
JD296123 - Sequence 277147 from Patent EP1572962.
JD321811 - Sequence 302835 from Patent EP1572962.
JD321810 - Sequence 302834 from Patent EP1572962.
JD110660 - Sequence 91684 from Patent EP1572962.
JD204390 - Sequence 185414 from Patent EP1572962.
JD143586 - Sequence 124610 from Patent EP1572962.
JD219079 - Sequence 200103 from Patent EP1572962.
JD120809 - Sequence 101833 from Patent EP1572962.
JD393302 - Sequence 374326 from Patent EP1572962.
JD060216 - Sequence 41240 from Patent EP1572962.
JD123480 - Sequence 104504 from Patent EP1572962.
JD426471 - Sequence 407495 from Patent EP1572962.
JD215941 - Sequence 196965 from Patent EP1572962.
BT007417 - Homo sapiens X-ray repair complementing defective repair in Chinese hamster cells 3 mRNA, complete cds.
DQ892162 - Synthetic construct clone IMAGE:100004792; FLH183586.01X; RZPDo839E04142D X-ray repair complementing defective repair in Chinese hamster cells 3 (XRCC3) gene, encodes complete protein.
DQ895355 - Synthetic construct Homo sapiens clone IMAGE:100009815; FLH183583.01L; RZPDo839E04141D X-ray repair complementing defective repair in Chinese hamster cells 3 (XRCC3) gene, encodes complete protein.
AB529168 - Synthetic construct DNA, clone: pF1KE1047, Homo sapiens XRCC3 gene for X-ray repair complementing defective repair in Chinese hamster cells 3, without stop codon, in Flexi system.
KJ901055 - Synthetic construct Homo sapiens clone ccsbBroadEn_10449 XRCC3 gene, encodes complete protein.
BC127808 - Homo sapiens cDNA clone IMAGE:40133605.
CU674514 - Synthetic construct Homo sapiens gateway clone IMAGE:100017051 5' read XRCC3 mRNA.
JD376364 - Sequence 357388 from Patent EP1572962.
JD051173 - Sequence 32197 from Patent EP1572962.
JD111491 - Sequence 92515 from Patent EP1572962.
JD535192 - Sequence 516216 from Patent EP1572962.
JD451009 - Sequence 432033 from Patent EP1572962.
MA620468 - JP 2018138019-A/192394: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000555055.1, ENST00000555055.2, ENST00000555055.3, ENST00000555055.4, ENST00000555055.5, hCG_25500 , NM_005432, Q53XC8, Q53XC8_HUMAN, uc325gtb.1, uc325gtb.2, XRCC3
UCSC ID: ENST00000555055.6_7
RefSeq Accession: NM_005432.4
Protein: Q53XC8

-  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.