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XRRA1 Gene

protein-coding GIFtS: 44

GC11M074229

X-ray radiation resistance associated 1
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc , and/or ⁷Ensembl, ⁸miRBase)
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Aliases
FLJ00225 ^¹

Descriptions
X-ray radiation resistance associated 1 ^²

External Ids
HGNC: 18868¹
Entrez Gene: 143570²
UniProtKB: Q6P2D8³
Ensembl: ENSG00000166435⁷

Search outside databases for aliases for XRRA1 gene

Previous GC identifers: GC11M074741 GC11M074280 GC11M074252

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

UniProtKB/Swiss-Prot: XRRA1_HUMAN, Q6P2D8

Function: May be involved in the response of cells to X-ray radiation

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:

UCSC Golden Path with GeneCards custom track

Transcription factor binding sites upstream to the XRRA1 gene

Entrez Gene cytogenetic band: 11q13.4 Ensembl cytogenetic band: 11q13.4 HGNC cytogenetic band: 11q13.4

XRRA1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 11 GeneLoc Exon Structure

GeneLoc location for GC11M074229: (about GC identifiers)

Start:	74,229,604 bp from pter
End:	74,337,880 bp from pter
Size:	108,277 bases
Orientation:	minus strand

RefSeq DNA sequence:

NC_000011.8 NT_033927.7

(According to ¹UniProtKB, and/or Ensembl, Phosphorylation sites according to ²Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: XRRA1_HUMAN, Q6P2D8 (See protein sequence)

Recommended Name: X-ray radiation resistance-associated protein 1

Size: 792 amino acids; 89864 Da

Subcellular location: Cytoplasm. Nucleus

Sequence caution: Sequence=AAO23657.1; Type=Frameshift; Positions=327; Sequence=AAP97315.1;

Type=Frameshift; Positions=327;

Secondary accessions: Q7RTT7 Q7Z463 Q7Z4U0

Alternative splicing: 4 isoforms: Q6P2D8-1 Q6P2D8-2 Q6P2D8-3 Q6P2D8-4

REFSEQ proteins: NP_892014.1

ENSEMBL proteins:

ENSP00000319303 ENSP00000339918 ENSP00000339158 ENSP00000381453

Human Recombinant Proteins

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	Browse Abnova for Human Recombinant Proteins

Browse Origene for full length recombinant human proteins expressed in human HEK293 cells

2 Gene Ontology (GO) cellular component terms (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005634	nucleus	IDA	12908878
GO:0005737	cytoplasm	IDA	12908878

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Antibodies for XRRA1:

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	Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
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	Search for antibodies at Abcam and the World's Antibody Gateway (free search engine of over 150 antibody companies)
	Browse Abnova for Monoclonal and Polyclonal Antibodies
	Search Novus for antibodies for XRRA1

Assays for XRRA1:

	Browse Invitrogen for biochemical assays
	Browse Kits and Assays available from Millipore
	Browse R&D Systems for biochemical assays
	Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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Graphical View of Domain Structure for InterPro Entry Q6P2D8

ProtoNet protein and cluster: Q6P2D8

1 Blocks protein family: IPB001611 Leucine-rich repeat signature

UniProtKB/Swiss-Prot: XRRA1_HUMAN, Q6P2D8

Similarity: Contains 6 LRR (leucine-rich) repeats

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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Inhib. RNA:		Invitrogen RNAi Products for gene knock-down (XRRA1)
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 17): XM_934939

Applied Biosystems Silencer® siRNAs for XRRA1

Sigma-Aldrich siRNA for XRRA1

Browse shRNA at Sigma-Aldrich

Explore Sigma-Aldrich super-pooled esiRNAs

Clones:		Browse Clone Ranger at Invitrogen for clones
		Browse Clones for the Expression of Recombinant Proteins Available from Millipore

OriGene GFP tagged cDNA clone in CMV expression vector: NM_182969
Myc/DDK tagged cDNA clone in CMV expression vector: NM_182969
untagged cDNA clones in CMV expression vector (see all 4): AK074152

Primers:

Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers

OriGene genome-wide validated SYBR primer pairs: NM_182969

UniProtKB/Swiss-Prot: XRRA1_HUMAN, Q6P2D8

Function: May be involved in the response of cells to X-ray radiation

Induction: By X-ray radiation immediately after exposure and is then down-regulated two-fold in an

X-ray radiation-resistant cell clone. Responds differently to X-ray radiation in clones of varying

radiation responses

2 Gene Ontology (GO) molecular function terms (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0003674	molecular_function	ND	--
GO:0005515	protein binding	IEA	--

About this table

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to ¹UniProtKB, ²MINT, and/or ³STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
About This Section

1 Interacting protein for XRRA1 (ENSP00000339918³) via UniProtKB, MINT, and/or STRING

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
XRCC5	ENSP00000329528³	STRING (score=.82)

About this table

1 Gene Ontology (GO) biological process term (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0010165	response to X-ray	IDA	12908878

About this table

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences

Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for XRRA1

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib. RNA:		Invitrogen RNAi Products for gene knock-down (XRRA1)
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 17): XM_934939

Sigma-Aldrich siRNA for XRRA1

Browse shRNA at Sigma-Aldrich

Explore Sigma-Aldrich super-pooled esiRNAs

Applied Biosystems Silencer® siRNAs:

NM_182969

REFSEQ mRNAs for XRRA1 gene:

NM_182969.1

Applied Biosystems TaqMan ® Gene Expression Assays:

NM_182969

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_182969
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_182969
                                 untagged cDNA clones in CMV expression vector (see all 4): AK074152

Additional cDNA sequence:

AF439934.1 AK056364.1 AK074152.1 AK091449.1 AY163836.1 BC037294.2 BC040541.1 BC064584.1

CR749605.1

13 DOTS entries:

DT.95218489 DT.120758595 DT.443902 DT.100830578 DT.101981739 DT.97780810 DT.120758620 DT.100791297

DT.75100277 DT.95331481 DT.97822839 DT.40245026 DT.91685297

12 AceView cDNA sequences:

BX424368 BE783661 AA331659 BU688666 AA331242 CD109566 BM921116 BX421492

BX491147 BE780143 CF593770 AW962535

highest scoring ESTs for XRRA1:

AK056364 BC037294 BC040541 BC064584 BM554373 BX491147 AA331242 AA331659 AI651142 AK091449

Unigene Cluster for XRRA1:

X-ray radiation resistance associated 1

Hs.718505 [show with all ESTs]

Unigene Representative Sequence: CR749605

GeneLoc Exon Structure

5/6 Alternative Splicing Database (ASD) splice patterns (SP) for XRRA1 (see all 6 )

ExUns:	1	^	2	^	3	^	4	^	5	^	6	^	7a	·	7b	^	8	^	9a	·	9b	^	10a	·	10b	^	11a	·	11b	^	12	^	13a	·	13b	^	14	^	15a	·	15b	^	16	^	17	^	18	^	19a	·	19b
SP1:																	-				-						-		-		-		-		-												-
SP2:																					-						-
SP3:																											-		-		-
SP4:																															-		-		-		-
SP5:

About this scheme

ECgene alternative splicing isoforms for XRRA1

4 Ensembl transcripts including schematic representations:

ENST00000321448 ENST00000340360 ENST00000344880 ENST00000398418

(Experimental results according to ¹GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to ²GeneAnnot , ³GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

XRRA1 expression in normal and diseased human tissues

Applied Biosystems TaqMan ® Gene Expression Assays for XRRA1

¹ / ² / ³

7 probe-sets matching XRRA1 gene

Affymetrix probe-set	Array	# genes	Sensitivity	Specificity	Correlation	Length	Gb_Accession	Consensus	Uniqueness	Score	Rank
Affymetrix probe-set	Array	GeneAnnot data			GeneNote data		GeneTide data
73807_at²^{, 3}	U95-E	1	1.00	1.00	0.91	1.13	AI057634	0.60	0.75	0.68	1
57957_at²^{, 3}	U95-B	1	0.94	1.00	0.62	0.88	AA129216	0.40	0.40	0.40	2
69339_at²^{, 3}	U95-E	1	0.62	1.00	-0.10	0.43	AI651142	0.60	1.00	0.82	1
230557_at²^{, 3}	U133-B	1	1.00	1.00	--	--	AW513519	0.40	0.50	0.45	1
237666_at²^{, 3}	U133-B	1	0.55	1.00	--	--	AW448937	0.40	1.00	0.76	1
230557_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--
237666_at²	U133Plus2	1	0.55	1.00	--	--	--	--	--	--	--

GeneDecks XRRA1 for binary patterns associated with the probe-sets selected above

About GeneDecksing

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Data from

(Publications) and GNF BioGPS
About these images
About these images

CGAP SAGE TAG: --

SOURCE GeneReport for Unigene cluster: Hs.718505
UniProtKB/Swiss-Prot: XRRA1_HUMAN, Q6P2D8
Tissue specificity: Expressed predominantly in testis followed by prostate and ovary. Low levels
found in other tissues including peripheral blood leukocytes, spleen, thymus, small intestine and
colon. Also expressed in neuroblastoma, glioma, breast, lung, leukemia, renal, ovarian, prostate
and colorectal cancer cell lines

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD and/or ⁵MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section

Orthologs for XRRA1 gene from 1 species

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
mouse (Mus musculus)	Xrra1^{1, 5}	7⁵	X-ray radiation resistance associated 1^{1, 5}	80.13(n)¹ 74.32(a)¹	446101¹ XM_194369.7¹ XP_194369.5¹ AI449753⁵ AK154558⁵ (see all 8)

About this table Species with no ortholog for XRRA1

ENSEMBL Gene Tree for XRRA1

(Paralogs according to ¹HomoloGene
and ²Ensembl, Pseudogenes according to ³Pseudogene.org)
About This Section

(According to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section

10/363 NCBI SNPs in XRRA1 are shown (see all 363 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay) (see all 129)

AB	SNP ID	Valid	Chr 11 pos	Sequence	Recs	AA Chg	Type	More	Recs	Pop	Total sample	More
AB	Genomic Data				Transcription Data				Allele Frequencies
				--	--	--		--	--			--
	rs517666^1,2	A,C,F,H	74231795(-)	`CCGGCC/TACAGG`	1	--	ut3¹ ese³		7	MN EA EU WA	2284
	rs4944960^1,2	A,C,F,H	74237094(+)	`TTGTCG/CTCATG`	1	R/T	mis¹ ese³		9	EU EA WA	1014
	rs12291445^1,2	C,F,H	74237074(+)	`ATCCTT/CTGAGG`	1	E/K	mis¹ ese³		8	EU EA WA	840
	rs617743^1,2	C,H	74319011(+)	`GTTTTC/TTGAGG`	1	E/K	mis¹ ese³		5	MN EU EA WA	600
	rs4944961^1,2	A,C,F,H	74237129(+)	`TGCTTC/TGGCAC`	1	P/P	syn¹ ese³		4	EU EA WA	412
	rs2304683^1,2	A,C,F,H	74240725(+)	`AACTCG/ACAGAG`	1	C/C	syn¹ ese³		12	EA EU WA NA	2262
	rs9735758^1,2	H	74295083(+)	`TCATAG/AAGCTG`	1	L/L	syn¹		4	EU EA WA	416
	rs603062^1,2	A,C,F,H,O	74320003(+)	`gacagT/Atgtag`	1	--	int¹		8	EU EA WA NA	738
	rs527529^1,2	A,C,F,H,O	74298448(+)	`TCAGAG/ATGGTG`	1	--	int¹		23	NS MN EU EA WA NA	1881
	rs625268^1,2	A,C,F,H,O	74241390(+)	`GCAATT/CGGTGG`	1	--	int¹		10	NA EU EA WA	914

About this table

HapMap Linkage Disequilibrium images for XRRA1 (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

OMIM: 609788

(Possibly Related Articles in Doctor's Guide)
About This Section

(in PubMed. Associations of this gene to articles via ¹Novoseek, ²HGNC, ³Entrez Gene, ⁴UniProtKB/Swiss-Prot, ⁵UniProtKB/TrEMBL, ⁶GAD, and/or ⁷PharmGKB)
About This Section

7 PubMed articles for XRRA1 gene:

Molecular cloning, genomic characterization and over-expression of a novel gene, XRRA1, identified from human colorectal cancer cell HCT116Clone2_XRR and macaque testis. (PubMed id 12908878)^{2, 3, 4} Mesak F.M.... Ng C.E. (2003)
Diesel exhaust particles disturb gene expression in mouse testis. (PubMed id 17295261)^{2, 3} Mori T....Kashiwagura T. (2007)
Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)³ Kimura K.... Sugano S. (2006)
Human chromosome 11 DNA sequence and analysis including novel gene identification. (PubMed id 16554811)⁴ Taylor T.D....Sakaki Y. (2006)
The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)⁴ Gerhard D.S....Malek J. (2004)
Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)³ Ota T....Sugano S. (2004)
Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)³ Strausberg R.L....Marra M.A. (2002)

(in PubMed, OMIM, and NCBI Bookshelf)
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		AND	OR
Aliases
Free Text

Query String		PubMed OMIM NCBI Bookshelf
	(Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
About This Section

Entrez Gene: 143570	HGNC: 18868	AceView: XRRA1.1	Ensembl:ENSG00000166435	euGenes: HUgn143570
ECgene: XRRA1	H-InvDB: XRRA1

(According to HUGE)
About This Section

(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

Licensable Technologies for XRRA1
(Available from WIS Yeda, Salk, Tufts)

About This Section

(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
About This Section

Products for XRRA1:

TaqMan ® Gene Expression Assays

TaqMan ® Genotyping Assays

Free SNP selection tool

Invitrogen iPath Pathways	Invitrogen BLOCK-iT™ RNAi
Invitrogen Antibodies	Invitrogen Assays
Invitrogen Clones	Invitrogen Q-PCR Products
Invitrogen Human Recombinant Kinases	Invitrogen Custom Antibody and Peptide Service
Invitrogen Proteins / Assays / Screening Services	Search Invitrogen catalog for XRRA1-related products

	Millipore Custom Antibody & Bulk Services
	Millipore Preclinical / Clinical Development Services
	Millipore Immunoassay Services
	Millipore Target Screening & Profiling Services

	Predesigned and custom siRNAs for XRRA1		Browse antibodies at Sigma-Aldrich
	Explore super-pooled esiRNAs		Browse proteins at Sigma-Aldrich
	Browse shRNAs at Sigma-Aldrich		Browse small molecules at Sigma-Aldrich
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	Multiplex/Array Assay Kits & Reagents		ELISpot Kits & Development Modules
	Recombinant & Natural Proteins

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Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies

Search Novus for antibodies for XRRA1

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XRRA1 Gene

protein-coding GIFtS: 44

Aliases &
Descriptions
for XRRA1

Summaries
for XRRA1

Genomic Location
for XRRA1

Proteins
for XRRA1

Protein Domains/
Families
for XRRA1

Gene Function
for XRRA1

Pathways & Interactions
for XRRA1

Drugs & Compounds
for XRRA1

Transcripts
for XRRA1

Expression
for XRRA1

Orthologs
for XRRA1

Paralogs
for XRRA1

SNPs/Variants
for XRRA1

Disorders & Mutations
for XRRA1

Medical News
for XRRA1

Publications
for XRRA1

Search for XRRA1

Genome Databases showing XRRA1

Other Databases showing XRRA1

Specialized Databases showing XRRA1

Licensable Technologies
for XRRA1

Services
for XRRA1

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

XRRA1 Gene

protein-coding GIFtS: 44

Aliases & Descriptionsfor XRRA1

Summariesfor XRRA1

Genomic Locationfor XRRA1

Proteinsfor XRRA1

Protein Domains/Familiesfor XRRA1

Gene Functionfor XRRA1

Pathways & Interactionsfor XRRA1

Drugs & Compoundsfor XRRA1

Transcriptsfor XRRA1

Expression for XRRA1

Orthologsfor XRRA1

Paralogsfor XRRA1

SNPs/Variantsfor XRRA1

Disorders & Mutationsfor XRRA1

Medical Newsfor XRRA1

Publicationsfor XRRA1

Search for XRRA1

Genome Databases showing XRRA1

Other Databases showing XRRA1

Specialized Databases showing XRRA1

Licensable Technologiesfor XRRA1

Servicesfor XRRA1

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

Aliases &
Descriptions
for XRRA1

Summaries
for XRRA1

Genomic Location
for XRRA1

Proteins
for XRRA1

Protein Domains/
Families
for XRRA1

Gene Function
for XRRA1

Pathways & Interactions
for XRRA1

Drugs & Compounds
for XRRA1

Transcripts
for XRRA1

Expression
for XRRA1

Orthologs
for XRRA1

Paralogs
for XRRA1

SNPs/Variants
for XRRA1

Disorders & Mutations
for XRRA1

Medical News
for XRRA1

Publications
for XRRA1

Licensable Technologies
for XRRA1

Services
for XRRA1