V3 here soon-try beta now


Gene Search (GeneCards Home)	\|	GeneCards Guide	\|	User Feedback	\|	Terms of Use	\|	Notice about third-party sites

ODF3 Gene

protein-coding GIFtS: 43

GC11P000186

outer dense fiber of sperm tails 3
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)
About This Section

Aliases
SHIPPO1 ^¹, ², ³, ⁵
TISP50 ^², ³
hSHIPPO ^¹, ²

Descriptions
Outer dense fiber of sperm tails protein 3 ^³
Sperm tail protein SHIPPO 1 ^³
Transcript induced in spermiogenesis protein 50 ^³
outer dense fiber of sperm tails 3 ^²
sperm tail protein SHIPPO1 ^²

External Ids
HGNC: 19905¹
Entrez Gene: 113746²
UniProtKB: Q96PU9³
Ensembl: ENSG00000177947⁷

Search outside databases for aliases for ODF3 gene

Previous GC identifers: GC11M000109 GC11M000998

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

EntrezGene summary for ODF3:

ODF3 is a component of sperm flagella outer dense fibers, which add stiffness, elastic recoil, and

protection against shearing forces during sperm movement.[supplied by OMIM]

UniProtKB/Swiss-Prot: ODF3A_HUMAN, Q96PU9

Function: Outer dense fibers are filamentous structures located on the outside of the axoneme in

the midpiece and principal piece of the mammalian sperm tail. May help to maintain the passive

elastic structures and elastic recoil of the sperm tail

(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 ODF3 gene

Entrez Gene cytogenetic band: 11p15.5 Ensembl cytogenetic band: 11p15.5 HGNC cytogenetic band: 11p15.5

ODF3 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 GC11P000186: (about GC identifiers)

Start:	186,738 bp from pter
End:	190,258 bp from pter
Size:	3,521 bases
Orientation:	plus strand

RefSeq DNA sequence:

NC_000011.8 NT_035113.6

(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)
About This Section

UniProtKB/Swiss-Prot: ODF3A_HUMAN, Q96PU9 (See protein sequence)

Recommended Name: Outer dense fiber protein 3

Size: 254 amino acids; 27710 Da

Subcellular location: Cytoplasm (By similarity). Note=Expressed in the cytoplasmic lobe of

spermatids (By similarity)

Miscellaneous: 'Shippo' is a Japanese word for tail

Secondary accessions: Q69YX0

Alternative splicing: 2 isoforms: Q96PU9-1 Q96PU9-2

REFSEQ proteins: NP_444510.2

ENSEMBL proteins:

ENSP00000339623 ENSP00000325868

Human Recombinant Proteins

	Browse Drug Discovery Central at Invitrogen for human recombinant proteins
	Browse Purified and Recombinant Proteins at Millipore
	Browse Human Recombinant Proteins at Sigma-Aldrich
	Browse R&D Systems for human recombinant proteins
	Browse recombinant and purified proteins available from Enzo Life Sciences
	Browse Abcam for Recombinant Proteins
	Browse Abnova for Human Recombinant Proteins

OriGene Purified Recombinant Human Protein: ODF3

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

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0001520	outer dense fiber	IEA	--
GO:0005737	cytoplasm	IEA	--

About this table

Antibodies for ODF3:

	Browse Antibodies Central at Invitrogen
	Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
	Browse Antibodies at Sigma-Aldrich
	Browse R&D Systems for Antibodies
	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 ODF3

Assays for ODF3:

	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 Q96PU9

ProtoNet protein and cluster: Q96PU9

UniProtKB/Swiss-Prot: ODF3A_HUMAN, Q96PU9

Similarity: Belongs to the ODF3 family

Similarity: Contains 2 DUF1309 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 (ODF3)
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_053280

Applied Biosystems Silencer® siRNAs for ODF3

Sigma-Aldrich siRNA for ODF3

Sigma-Aldrich shRNA for ODF3

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_053280
Myc/DDK tagged cDNA clone in CMV expression vector: NM_053280
untagged cDNA clone in CMV expression vector: NM_053280

Primers:

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

OriGene genome-wide validated SYBR primer pairs: NM_053280

UniProtKB/Swiss-Prot: ODF3A_HUMAN, Q96PU9

Function: Outer dense fibers are filamentous structures located on the outside of the axoneme in

the midpiece and principal piece of the mammalian sperm tail. May help to maintain the passive

elastic structures and elastic recoil of the sperm tail

(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

3 Gene Ontology (GO) biological process terms (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0007275	multicellular organismal development	IEA	--
GO:0007283	spermatogenesis	IEA	--
GO:0030154	cell differentiation	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 ODF3

(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 (ODF3)
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_053280

Sigma-Aldrich siRNA for ODF3

Sigma-Aldrich shRNA for ODF3

Explore Sigma-Aldrich super-pooled esiRNAs

Applied Biosystems Silencer® siRNAs:

NM_053280

REFSEQ mRNAs for ODF3 gene:

NM_053280.3

Applied Biosystems TaqMan ® Gene Expression Assays:

NM_053280

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_053280
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_053280
                                 untagged cDNA clone in CMV expression vector: NM_053280

Additional cDNA sequence:

AB067774.1 AL133658.1 AY713299.1 BC126222.1 BC126248.1 BC144022.1

1 DOTS entry:

DT.40127582

6 AceView cDNA sequences:

NM_053280 BX093806 AL133658 AI126587 AB067774 AA977621

highest scoring ESTs for ODF3:

AA977621 AB067774 AI126587 BX093806 AL133658 NM_053280 AY713299 BC126222 BC126248

Unigene Cluster for ODF3:

Outer dense fiber of sperm tails 3

Hs.350949 [show with all ESTs]

Unigene Representative Sequence: AL133658

GeneLoc Exon Structure

2 Ensembl transcripts including schematic representations:

ENST00000342593 ENST00000325113

(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

ODF3 expression in normal and diseased human tissues

Applied Biosystems TaqMan ® Gene Expression Assays for ODF3

¹ / ² / ³

4 probe-sets matching ODF3 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
66813_at²^{, 3}	U95-C	1	0.69	1.00	1.00	1.00	AA977621	1.00	1.00	1.00	1
233795_at²^{, 3}	U133-B	1	0.46	1.00	--	--	AL133658	0.60	1.00	0.82	1
1553051_s_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--
233795_at²	U133Plus2	1	0.46	1.00	--	--	--	--	--	--	--

GeneDecks ODF3 for binary patterns associated with the probe-sets selected above

About GeneDecksing

About this table

Data from

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

CGAP SAGE TAG: GCTGCCCGTG

SOURCE GeneReport for Unigene cluster: Hs.350949
UniProtKB/Swiss-Prot: ODF3A_HUMAN, Q96PU9
Tissue specificity: Testis-specific

(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 ODF3 gene from 5/10 species (see all 10 )

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
dog (Canis familiaris)	ODF3¹	--	outer dense fiber of sperm tails 3	88.98(n) 93.31(a)	483392 XM_540511.2 XP_540511.2
chimpanzee (Pan troglodytes)	ODF3¹	--	outer dense fiber of sperm tails 3	99.34(n) 98.82(a)	738253 XM_001141783.1 XP_001141783.1
cow (Bos taurus)	ODF3¹	--	outer dense fiber of sperm tails 3	90.29(n) 92.91(a)	509757 XM_586785.3 XP_586785.1
rat (Rattus norvegicus)	Odf3¹	--	outer dense fiber of sperm tails 3	88.85(n) 92.52(a)	365387 XM_344975.3 XP_344976.3
mouse (Mus musculus)	Odf3^{1, 5}	7⁵	outer dense fiber of sperm tails 3^{1, 5}	88.71(n)¹ 93.31(a)¹	69287¹ NM_027019.2¹ NP_081295.1¹ AB067773⁵ AK005883⁵ (see all 8)

About this table Species with no ortholog for ODF3

ENSEMBL Gene Tree for ODF3

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

Paralogs for ODF3 gene

ODF3B² ODF3L2² ODF3L1²

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

10/44 NCBI SNPs in ODF3 are shown (see all 44 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay) (see all 39)

AB	SNP ID	Valid	Chr 11 pos	Sequence	Recs	AA Chg	Type	More	Recs	Allele freq	Pop	Total sample	More
AB	Genomic Data				Transcription Data				Allele Frequencies
				--	--	--		--	--				--
	rs7114102^1,2	A,C,F,H	190289(-)	`GGAAAA/TGCTTG`	1	--	ng3¹		11		EU EA WA NA	974
	rs7122665^1,2	F,H	190308(-)	`CCTACG/AGGGGC`	1	--	ng3¹		4		EU EA WA	418
	rs11604127^1,2	C	186944(+)	`CGGCCC/TCCTCC`	1	--	ut5¹ ese³ trp³		0	--	--	--	--
--	rs3851814^1,2	A	185431(-)	`TGGGCA/GCTGGG`	1	--	ng5¹		0	--	--	--	--
--	rs3851815^1,2	A	185391(-)	`ACCTGC/TGGCTC`	1	--	ng5¹		0	--	--	--	--
--	rs2686892^1,2	C	185218(+)	`TGAGGC/TGGGAG`	1	--	ng5¹		0	--	--	--	--
	rs3802985^1,2	C,F,H	188510(+)	`ACCGTC/TGGCAA`	1	V/V	syn¹		5		EA EU WA	1346
	rs3802984^1,2	C	187337(+)	`TGGAGA/GCCCCA`	1	R/R	syn¹ ese³		0	--	--	--	--
	rs3741411^1,2	A,C,F,H	189256(+)	`TGCACA/GGGCAC`	1	--	int¹		13		EA NA EU WA	2476
	rs11605246^1,2	C,H	188062(+)	`ACCCCC/GTGACC`	1	--	int¹		3		EA WA	298

About this table

HapMap Linkage Disequilibrium images for ODF3 (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: 608356

(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

4 PubMed articles for ODF3 gene:

Molecular cloning and characterization of a complementary DNA encoding sperm tail protein SHIPPO 1. (PubMed id 11870087)^{1, 2, 3, 4} Egydio de Carvalho C....Nishimune Y. (2002)
The full-ORF clone resource of the German cDNA Consortium. (PubMed id 17974005)⁴ Bechtel S....Schupp I. (2007)
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)
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)
About This Section

		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: 113746	HGNC: 19905	AceView: ODF3	Ensembl:ENSG00000177947	euGenes: HUgn113746
ECgene: ODF3	H-InvDB: ODF3

(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 ODF3
(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 ODF3:

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 ODF3-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 ODF3		Browse antibodies at Sigma-Aldrich
	Explore super-pooled esiRNAs		Browse proteins at Sigma-Aldrich
	Lentivirus-delivered shRNAs for ODF3		Browse small molecules at Sigma-Aldrich
	"Your Favorite Gene" Pathways		feedback

	Antibodies		Primer Pairs
	Cell Culture Products		ELISAs
	Flow Cytometry Kits		Protease Activity Assays & Reagents
	Cell Selection/Detection Kits & Reagents		ELISA/Assay Development Kits & Reagents
	Multiplex/Array Assay Kits & Reagents		ELISpot Kits & Development Modules
	Recombinant & Natural Proteins

	Search for Recombinant Proteins
	Search for Antibodies
	Search for Chimera RNAi
	Custom Service for Mouse Mab
	Custom Service for Rabbit Pab from Full-length Protein

Search for Antibodies & Assays

	Search for Recombinant Proteins
	Search for Antibodies

	Tagged/untagged cDNA clones
	Validated SYBR primer pairs
	Purified proteins from HEK293T cells
	Western blot validated antibodies
	shRNA in GFP-retroviral vector

Search Tocris compounds for ODF3

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

Search Novus for antibodies for ODF3

GeneCards Homepage - Last full update: 2 Jul 2009 Incremental update: 13 Oct 2009

Random Gene From GIFtS :

about GIFtS

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

Developed at the Crown Human Genome Center & Weizmann Institute of Science

The GeneCards Human Gene Database: Copyright © 1996-2009, Weizmann Institute of Science. All Rights Reserved.
ODF3 Gene at Home site.
Version 2.41.1
server5.xennexinc.com

ODF3 Gene

protein-coding GIFtS: 43

Aliases &
Descriptions
for ODF3

Summaries
for ODF3

Genomic Location
for ODF3

Proteins
for ODF3

Protein Domains/
Families
for ODF3

Gene Function
for ODF3

Pathways & Interactions
for ODF3

Drugs & Compounds
for ODF3

Transcripts
for ODF3

Expression
for ODF3

Orthologs
for ODF3

Paralogs
for ODF3

SNPs/Variants
for ODF3

Disorders & Mutations
for ODF3

Medical News
for ODF3

Publications
for ODF3

Search for ODF3

Genome Databases showing ODF3

Other Databases showing ODF3

Specialized Databases showing ODF3

Licensable Technologies
for ODF3

Services
for ODF3

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

ODF3 Gene

protein-coding GIFtS: 43

Aliases & Descriptionsfor ODF3

Summariesfor ODF3

Genomic Locationfor ODF3

Proteinsfor ODF3

Protein Domains/Familiesfor ODF3

Gene Functionfor ODF3

Pathways & Interactionsfor ODF3

Drugs & Compoundsfor ODF3

Transcriptsfor ODF3

Expression for ODF3

Orthologsfor ODF3

Paralogsfor ODF3

SNPs/Variantsfor ODF3

Disorders & Mutationsfor ODF3

Medical Newsfor ODF3

Publicationsfor ODF3

Search for ODF3

Genome Databases showing ODF3

Other Databases showing ODF3

Specialized Databases showing ODF3

Licensable Technologiesfor ODF3

Servicesfor ODF3

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 ODF3

Summaries
for ODF3

Genomic Location
for ODF3

Proteins
for ODF3

Protein Domains/
Families
for ODF3

Gene Function
for ODF3

Pathways & Interactions
for ODF3

Drugs & Compounds
for ODF3

Transcripts
for ODF3

Expression
for ODF3

Orthologs
for ODF3

Paralogs
for ODF3

SNPs/Variants
for ODF3

Disorders & Mutations
for ODF3

Medical News
for ODF3

Publications
for ODF3

Licensable Technologies
for ODF3

Services
for ODF3