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PAAF1 Gene

protein-coding GIFtS: 43

GC11P073267

proteasomal ATPase-associated factor 1
(Previous name: WD repeat domain 71 )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: WDR71)

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

Aliases
FLJ11848 ^¹, ²
PAAF ^²
Rpn14 ^¹, ²
WDR71 ^², ³

Descriptions
Protein G-16 ^³
WD repeat domain 71 ^¹, ²
WD repeat-containing protein 71 ^³
proteasomal ATPase-associated factor 1 ^²

External Ids
HGNC: 25687¹
Entrez Gene: 80227²
UniProtKB: Q9BRP4³
Ensembl: ENSG00000175575⁷

Search outside databases for aliases for PAAF1 gene

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

UniProtKB/Swiss-Prot: PAAF1_HUMAN, Q9BRP4

Function: Inhibits proteasome 26S assembly and proteolytic activity by impairing the association of

the 19S regulatory complex with the 20S core. In case of HIV-1 infection, recruited by viral Tat

to the HIV-1 promoter, where it promotes the recruitment of 19S regulatory complex through

dissociation of the proteasome 26S. This presumably promotes provirus transcription efficiency

Gene Wiki entry for PAAF1

(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

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

PAAF1 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 GC11P073267: (about GC identifiers)

Start:	73,265,681 bp from pter
End:	73,316,427 bp from pter
Size:	50,747 bases
Orientation:	plus 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: PAAF1_HUMAN, Q9BRP4 (See protein sequence)

Recommended Name: Proteasomal ATPase-associated factor 1

Size: 392 amino acids; 42190 Da

Subunit: Interacts with PSMC1, PSMC2, PSMC3, PSMC4, PSMC5 and PSMC6. Interacts with HIV-1 Tat

Secondary accessions: A6NDR5 Q4G165 Q53HS9 Q7Z500 Q8TBU6 Q9HAB6

Alternative splicing: 2 isoforms: Q9BRP4-1 Q9BRP4-2

REFSEQ proteins: NP_079431.1

ENSEMBL proteins:

ENSP00000311665 ENSP00000365564

Human Recombinant Proteins

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OriGene Purified Recombinant Human Protein: PAAF1

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

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005829	cytosol	IEA	--
GO:0043234	protein complex	IEA	--

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Antibodies for PAAF1:

	Browse Antibodies Central at Invitrogen
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	Browse Abnova for Monoclonal and Polyclonal Antibodies
	Search Novus for antibodies for PAAF1

Assays for PAAF1:

	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)
About This Section

Graphical View of Domain Structure for InterPro Entry Q9BRP4

ProtoNet protein and cluster: Q9BRP4

UniProtKB/Swiss-Prot: PAAF1_HUMAN, Q9BRP4

Similarity: Contains 5 WD 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.)
About This Section

Inhib. RNA:		Invitrogen RNAi Products for gene knock-down (PAAF1)
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_025155

Applied Biosystems Silencer® siRNAs for PAAF1

Sigma-Aldrich siRNA for PAAF1

Sigma-Aldrich shRNA for PAAF1

Explore Sigma-Aldrich super-pooled esiRNAs

Clones:		Invitrogen Clones for PAAF1
		Browse Clones for the Expression of Recombinant Proteins Available from Millipore

OriGene GFP tagged cDNA clone in CMV expression vector: NM_025155
Myc/DDK tagged cDNA clone in CMV expression vector: NM_025155
untagged cDNA clone in CMV expression vector: NM_025155

Primers:

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

OriGene genome-wide validated SYBR primer pairs: NM_025155

UniProtKB/Swiss-Prot: PAAF1_HUMAN, Q9BRP4

Function: Inhibits proteasome 26S assembly and proteolytic activity by impairing the association of

the 19S regulatory complex with the 20S core. In case of HIV-1 infection, recruited by viral Tat

to the HIV-1 promoter, where it promotes the recruitment of 19S regulatory complex through

dissociation of the proteasome 26S. This presumably promotes provirus transcription efficiency

1 Gene Ontology (GO) molecular function term (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005515	protein binding	IPI	17353931

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

5/19 Interacting proteins for PAAF1 (Q9BRP4¹ ENSP00000365564³) via UniProtKB, MINT, and/or STRING (see all 19 )

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
PSMC4	P43686¹, ENSP00000157812³	EBI-1056358, EBI-743997 STRING (score=.815)
ALDH16A1	Q8IZ83¹	EBI-1056358, EBI-1044483
DERA	Q9Y315¹	EBI-1056358, EBI-1048152
FADS1	O60427¹	EBI-1056358, EBI-1055473
PSMC1	P62191¹	EBI-1056358, EBI-357598

About this table

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

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0044419	interspecies interaction between organisms	IEA	--

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 PAAF1

(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 (PAAF1)
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_025155

Sigma-Aldrich siRNA for PAAF1

Sigma-Aldrich shRNA for PAAF1

Explore Sigma-Aldrich super-pooled esiRNAs

Applied Biosystems Silencer® siRNAs:

NM_025155

REFSEQ mRNAs for PAAF1 gene:

NM_025155.1

Applied Biosystems TaqMan ® Gene Expression Assays:

NM_025155

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_025155
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_025155
                                 untagged cDNA clone in CMV expression vector: NM_025155

Additional cDNA sequence:

AF087895.1 AK021910.1 AK222501.1 AK225520.1 AK298258.1 AK309133.1 AK316394.1 BC006142.2

BC021541.1 BC028628.1 BC028677.1 BC045774.1 CR608221.1 CR621285.1 CR623159.1

8 DOTS entries:

DT.314939 DT.92424389 DT.100783361 DT.40312236 DT.102829423 DT.40106995 DT.120754813 DT.95069811

24/156 AceView cDNA sequences (see all 156 ):

CA405808 BM670134 NM_025155 BM925928 BQ014677 BQ220216 CD365588 AK021910

AW298592 AA746090 AA262678 BC006142 AW250388 BM700121 BQ425623 CF145036

CA437149 C21358 BQ050490 CK299821 BC021541 CR621285 BQ892987 AU119812

Unigene Cluster for PAAF1:

Proteasomal ATPase-associated factor 1

Hs.525017 [show with all ESTs]

Unigene Representative Sequence: BC045774

GeneLoc Exon Structure

5/6 Alternative Splicing Database (ASD) splice patterns (SP) for PAAF1 (see all 6 )

ExUns:	1a	·	1b	·	1c	·	1d	·	1e	^	2a	·	2b	^	3a	·	3b	^	4	^	5	^	6	^	7	^	8	^	9	^	10	^	11	^	12	^	13	^	14a	·	14b
SP1:									-				-								-
SP2:									-				-		-		-				-
SP3:													-		-						-
SP4:													-		-		-				-
SP5:

About this scheme

ECgene alternative splicing isoforms for PAAF1

2 Ensembl transcripts including schematic representations:

ENST00000310571 ENST00000376384

(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

PAAF1 expression in normal and diseased human tissues

Applied Biosystems TaqMan ® Gene Expression Assays for PAAF1

¹ / ²

5 probe-sets matching PAAF1 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
50344_at²	U95-B	2	1.00	0.97	0.67	1.30	--	--	--	--	--
61748_at²	U95-C	4	1.00	0.95	0.92	0.71	--	--	--	--	--
218957_s_at²	U133-A	1	1.00	1.00	--	--	--	--	--	--	--
1568702_a_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--
218957_s_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--

About this table

Data from

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

CGAP SAGE TAG: GCGTTTAATG

SOURCE GeneReport for Unigene cluster: Hs.525017
UniProtKB/Swiss-Prot: PAAF1_HUMAN, Q9BRP4
Tissue specificity: Ubiquitously expressed, with highest levels in kidney, brain and testis

(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 PAAF1 gene from 5/6 species (see all 6 )

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
dog (Canis familiaris)	PAAF1¹	--	proteasomal ATPase-associated factor 1	93.28(n) 95.41(a)	476810 XM_534014.2 XP_534014.1
chimpanzee (Pan troglodytes)	PAAF1¹	--	proteasomal ATPase-associated factor 1	99.49(n) 98.72(a)	466705 XM_522104.2 XP_522104.2
cow (Bos taurus)	PAAF1¹	--	proteasomal ATPase-associated factor 1	93.96(n) 95.41(a)	533348 NM_001075990.1 NP_001069458.1
chicken (Gallus gallus)	PAAF1¹	--	proteasomal ATPase-associated factor 1	76.45(n) 82.14(a)	419061 NM_001030835.1 NP_001026006.1
worm (Caenorhabditis elegans)	Y39G10AR.9¹	--	hypothetical protein	43.54(n) 31(a)	171789 NM_058556.3 NP_490957.1

About this table Species with no ortholog for PAAF1

ENSEMBL Gene Tree for PAAF1

(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

10/303 NCBI SNPs in PAAF1 are shown (see all 303 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay) (see all 89)

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
				--	--	--		--	--			--
	rs3741138^1,2	C,F,H	73298185(-)	`AGCAGG/CCTGAG`	1	G/A	mis¹		16	EA NA EU WA	2826
	rs2067912^1,2	C,F,H	73288997(+)	`GAATTG/CTTGCA`	1	S/C	mis¹		14	EA EU WA	2546
	rs11235951^1,2	C,F,H	73316506(+)	`ACTCCC/TTGTTG`	1	--	ng3¹		5	EU EA WA	590
	rs11235952^1,2	C,H	73316633(+)	`GTTTTC/ATGTGA`	1	--	ng3¹		4	EU EA WA	418
	rs1670561^1,2	A,C,F,H,O	73278807(+)	`CAGAAG/AAGATA`	1	--	int¹		13	NA EU EA WA	1158
	rs1670560^1,2	A,C,F,H,O	73277815(+)	`CCCAGG/ATGTTT`	1	--	int¹		8	MN EU EA WA NA	744
	rs1670543^1,2	A,C,F,H,O	73267958(-)	`gtactC/Tagctt`	1	--	int¹		15	EU EA WA NA	1404
	rs12799686^1,2	A,C,F,H	73302536(+)	`tcccaA/Gctcct`	1	--	int¹		7	EU EA WA NA	558
	rs7119602^1,2	A,C,F,H	73277448(+)	`TATCAG/CAAGAT`	1	--	int¹		8	EU EA WA	840
	rs1792154^1,2	A,C,F,O	73299053(+)	`GTAATT/GGTAAG`	1	--	int¹		9	MN NA EA EU WA	914

About this table

HapMap Linkage Disequilibrium images for PAAF1 (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

(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)
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10/12 PubMed articles for PAAF1 gene (see all 12 ):

Proteasomal ATPase-associated factor 1 negatively regulates proteasome activity by interacting with proteasomal ATPases. (PubMed id 15831487)^{1, 2, 3, 4} Park Y.... Yoon J.-B. (2005)
The proteasome regulates HIV-1 transcription by both proteolytic and nonproteolytic mechanisms. (PubMed id 17289585)^{2, 3, 4} Lassot I....Kiernan R.E. (2007)
Lower expression of catalytic and structural subunits of the proteasome contributes to decreased proteolysis in peripheral blood T lymphocytes during aging. (PubMed id 17317272)^{2, 3} Ponnappan S....Ponnappan U. (2007)
The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)^{3, 4} Gerhard D.S....Malek J. (2004)
Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)^{3, 4} Ota T....Sugano S. (2004)
Mass spectrometric characterization of the affinity-purified human 26S proteasome complex. (PubMed id 17323924)⁴ Wang X.... Huang L. (2007)
Large-scale mapping of human protein-protein interactions by mass spectrometry. (PubMed id 17353931)³ Ewing R.M....Figeys D. (2007)
Human chromosome 11 DNA sequence and analysis including novel gene identification. (PubMed id 16554811)⁴ Taylor T.D....Sakaki Y. (2006)
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)
Hepatitis C virus core protein interacts with 14-3-3 protein and activates the kinase Raf-1. (PubMed id )⁴ Aoki H.... Hino O. (2000)

(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)
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Entrez Gene: 80227	HGNC: 25687	AceView: FLJ11848	Ensembl:ENSG00000175575	euGenes: HUgn80227
ECgene: PAAF1	H-InvDB: PAAF1

(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 PAAF1
(Available from WIS Yeda, Salk, Tufts)

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(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)
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Products for PAAF1:

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 PAAF1-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 PAAF1		Browse antibodies at Sigma-Aldrich
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	Lentivirus-delivered shRNAs for PAAF1		Browse small molecules at Sigma-Aldrich
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PAAF1 Gene

protein-coding GIFtS: 43

Aliases &
Descriptions
for PAAF1

Summaries
for PAAF1

Genomic Location
for PAAF1

Proteins
for PAAF1

Protein Domains/
Families
for PAAF1

Gene Function
for PAAF1

Pathways & Interactions
for PAAF1

Drugs & Compounds
for PAAF1

Transcripts
for PAAF1

Expression
for PAAF1

Orthologs
for PAAF1

Paralogs
for PAAF1

SNPs/Variants
for PAAF1

Disorders & Mutations
for PAAF1

Medical News
for PAAF1

Publications
for PAAF1

Search for PAAF1

Genome Databases showing PAAF1

Other Databases showing PAAF1

Specialized Databases showing PAAF1

Licensable Technologies
for PAAF1

Services
for PAAF1

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

PAAF1 Gene

protein-coding GIFtS: 43

Aliases & Descriptionsfor PAAF1

Summariesfor PAAF1

Genomic Locationfor PAAF1

Proteinsfor PAAF1

Protein Domains/Familiesfor PAAF1

Gene Functionfor PAAF1

Pathways & Interactionsfor PAAF1

Drugs & Compoundsfor PAAF1

Transcriptsfor PAAF1

Expression for PAAF1

Orthologsfor PAAF1

Paralogsfor PAAF1

SNPs/Variantsfor PAAF1

Disorders & Mutationsfor PAAF1

Medical Newsfor PAAF1

Publicationsfor PAAF1

Search for PAAF1

Genome Databases showing PAAF1

Other Databases showing PAAF1

Specialized Databases showing PAAF1

Licensable Technologiesfor PAAF1

Servicesfor PAAF1

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 PAAF1

Summaries
for PAAF1

Genomic Location
for PAAF1

Proteins
for PAAF1

Protein Domains/
Families
for PAAF1

Gene Function
for PAAF1

Pathways & Interactions
for PAAF1

Drugs & Compounds
for PAAF1

Transcripts
for PAAF1

Expression
for PAAF1

Orthologs
for PAAF1

Paralogs
for PAAF1

SNPs/Variants
for PAAF1

Disorders & Mutations
for PAAF1

Medical News
for PAAF1

Publications
for PAAF1

Licensable Technologies
for PAAF1

Services
for PAAF1