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IFFO1 Gene

protein-coding GIFtS: 44

GC12M006521

intermediate filament family orphan 1
(Previous name: intermediate filament family orphan )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: IFFO)

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

Aliases
DKFZp586I2223 ^²
FLJ20703 ^²
HOM-TES-103 ^¹, ²
IFFO ^², ³
MGC117359 ^²

Descriptions
HOM-TES-103 tumor antigen ^³
HOM-TES-103 tumor antigen-like ^²
intermediate filament family orphan ^¹, ²
intermediate filament family orphan 1 ^²
intermediate filament-like MGC:2625 ^²

External Ids
HGNC: 24970¹
Entrez Gene: 25900²
UniProtKB: Q0D2I5³
Ensembl: ENSG00000010295⁷

Search outside databases for aliases for IFFO1 gene

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

EntrezGene summary for IFFO1:

This gene is a member of the intermediate filament family. Intermediate filaments are proteins

which are primordial components of the cytoskeleton and nuclear envelope. The proteins encoded by

the members of this gene family are evolutionarily and structurally related but have limited

sequence homology, with the exception of the central rod domain. Alternative splicing has been

observed for this gene and three transcript variants encoding different isoforms have been

identified. Other alternatively spliced transcripts may exist, but their biological validity has

not been confirmed. [provided by RefSeq]

(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: 12p13.3 Ensembl cytogenetic band: 12p13.31 HGNC cytogenetic band: 12p13.31

IFFO1 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 12 GeneLoc Exon Structure

GeneLoc location for GC12M006521: (about GC identifiers)

Start:	6,518,955 bp from pter
End:	6,535,498 bp from pter
Size:	16,544 bases
Orientation:	minus strand

RefSeq DNA sequence:

NC_000012.10 NT_009759.15

(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: IFFO1_HUMAN, Q0D2I5 (See protein sequence)

Recommended Name: Intermediate filament family orphan 1

Size: 563 amino acids; 62524 Da

Secondary accessions: Q7L5J9 Q7Z5X4 Q9BQ46

Alternative splicing: 4 isoforms: Q0D2I5-1 Q0D2I5-2 Q0D2I5-3 Q0D2I5-4

Post-translational modifications:

View phosphorylation sites using PhosphoSite²

REFSEQ proteins (3 alternative transcripts):

NP_001034759.1 NP_542768.1 NP_542769.2

ENSEMBL proteins:

ENSP00000380042 ENSP00000351712 ENSP00000337593 ENSP00000349364 ENSP00000380052

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
	Recombinant Proteins from Abcam (IFFO)
	Human Recombinant Proteins from Abnova (HOM-TES-103)

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

1 Gene Ontology (GO) cellular component term (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005882	intermediate filament	IEA	--

About this table

Antibodies for IFFO1:

	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
	Antibodies from Abcam (IFFO), each with their Abpromise^SM
	Monoclonal and Polyclonal Antibodies from Abnova (HOM-TES-103)
	Novus Biologicals Antibody for IFFO1

Assays for IFFO1:

	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

ProtoNet protein and cluster: Q0D2I5

1 Blocks protein family: IPB001664 Intermediate filament protein

UniProtKB/Swiss-Prot: IFFO1_HUMAN, Q0D2I5

Similarity: Belongs to the intermediate filament family

(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 (IFFO1)
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 4): NM_015438

Applied Biosystems Silencer® siRNAs for IFFO1

Sigma-Aldrich siRNA for IFFO1

Sigma-Aldrich shRNA for IFFO1

Explore Sigma-Aldrich super-pooled esiRNAs

Clones:		Invitrogen Clones for IFFO1
		Browse Clones for the Expression of Recombinant Proteins Available from Millipore

OriGene GFP tagged cDNA clones in CMV expression vector (see all 3): NM_001039670
Myc/DDK tagged cDNA clones in CMV expression vector (see all 3): NM_001039670
untagged cDNA clones in CMV expression vector (see all 4): NM_001039670

Primers:

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

OriGene genome-wide validated SYBR primer pairs: NM_001039670

(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

(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 IFFO1

(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 (IFFO1)
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 4): NM_015438

Sigma-Aldrich siRNA for IFFO1

Sigma-Aldrich shRNA for IFFO1

Explore Sigma-Aldrich super-pooled esiRNAs

Applied Biosystems Silencer® siRNAs:

NM_001039670 NM_080730 NM_080731

REFSEQ mRNAs for IFFO1 gene (3 alternative transcripts):

NM_001039670.1 NM_080730.2 NM_080731.2

Applied Biosystems TaqMan ® Gene Expression Assays:

NM_001039670 NM_080730 NM_080731

               OriGene GFP tagged cDNA clones in CMV expression vector (see all 3): NM_001039670
                                 Myc/DDK tagged cDNA clones in CMV expression vector (see all 3): NM_001039670
                                 untagged cDNA clones in CMV expression vector (see all 4): NM_001039670

Additional cDNA sequence:

AF124432.1 AK000710.1 AK095106.1 AK298905.1 AL080214.1 BC002857.2 BC004384.1 BC063004.1

BC071170.1 BC103817.1 BC103818.1 BC103819.1 BC110387.1 BC113848.1 BC114454.1 CR616146.1

16 DOTS entries:

DT.97842497 DT.97842496 DT.111138 DT.100024189 DT.101976871 DT.97768818 DT.100024190 DT.121213105

DT.121213475 DT.121213377 DT.100871720 DT.100868495 DT.121213217 DT.121213389 DT.121213404 DT.91758456

13 AceView cDNA sequences:

BX327856 CR616146 BC023664 AL563346 NM_015438 BC010431 NM_080730 AL573145

BC001790 AL529137 BI824640 AL548672 BX418917

Unigene Cluster for IFFO1:

Intermediate filament family orphan 1

Hs.15243 [show with all ESTs]

Unigene Representative Sequence: CR616146

GeneLoc Exon Structure

5/7 Alternative Splicing Database (ASD) splice patterns (SP) for IFFO1 (see all 7 )

ExUns:	1a	·	1b	^	2a	·	2b	^	3	^	4	^	5	^	6	^	7a	·	7b	^	8	^	9	^	10	^	11a	·	11b
SP1:
SP2:
SP3:
SP4:					-		-		-
SP5:					-		-

About this scheme

ECgene alternative splicing isoforms for IFFO1

5 Ensembl transcripts including schematic representations:

ENST00000396830 ENST00000358846 ENST00000336604 ENST00000356896 ENST00000396840

(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

IFFO1 expression in normal and diseased human tissues

Applied Biosystems TaqMan ® Gene Expression Assays for IFFO1

¹ / ²

5 probe-sets matching IFFO1 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
36030_at²	U95-A	1	1.00	1.00	1.00	1.00	--	--	--	--	--
36030_at²	U133-A	1	1.00	1.00	--	--	--	--	--	--	--
209721_s_at²	U133-A	1	1.00	1.00	--	--	--	--	--	--	--
36030_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--
209721_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: TGTGCGCGGG

SOURCE GeneReport for Unigene cluster: Hs.15243
UniProtKB/Swiss-Prot: IFFO1_HUMAN, Q0D2I5
Tissue specificity: Ubiquitously expressed

(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 IFFO1 gene from 5/14 species (see all 14 )

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
dog (Canis familiaris)	IFFO1¹	--	intermediate filament family orphan 1	92.94(n) 96.26(a)	486725 XM_543852.2 XP_543852.2
chimpanzee (Pan troglodytes)	IFFO1¹	--	intermediate filament family orphan 1	99.76(n) 99.64(a)	466936 XM_522336.2 XP_522336.2
cow (Bos taurus)	IFFO1¹	--	intermediate filament family orphan 1	92(n) 94.09(a)	506821 XM_876454.2 XP_881547.2
rat (Rattus norvegicus)	RGD1308257¹	--	similar to intermediate filament-like protein MGC:2625 more	88.99(n) 94.46(a)	362437 XM_342758.3 XP_342759.3
mouse (Mus musculus)	Iffo1^{1, 5}	6⁵	intermediate filament family orphan 1^{1, 5}	89.32(n)¹ 94.66(a)¹	320678¹ NM_001039669.2¹ NP_001034758.1¹ AI846711⁵ AK028273⁵ (see all 16)

About this table Species with no ortholog for IFFO1

ENSEMBL Gene Tree for IFFO1

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

Paralogs for IFFO1 gene

IFFO2²

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

10/85 NCBI SNPs in IFFO1 are shown (see all 85 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay) (see all 57)

AB	SNP ID	Valid	Chr 12 pos	Sequence	Recs	AA Chg	Type	More	Recs	Allele freq	Pop	Total sample	More
AB	Genomic Data				Transcription Data				Allele Frequencies
				--	--	--		--	--				--
	rs2286726^1,2	A,C,F,H	6529955(+)	`TTGTTG/CCTTGT`	3	--	ng3¹ int¹		4		EA WA	1772
	rs2240875^1,2	A,C,F	6519801(+)	`CAGGGA/GCCGGC`	3	--	ut3¹ ese³		1		EA	1472
	rs2286725^1,2	C,F	6529121(+)	`CCAGCC/TGCCAC`	3	--	int¹ ng3¹		4		EA NA	1604
--	rs7301426^1,2	A	6530486(+)	`CCCCAC/TGGCTC`	3	--	ng3¹ int¹		0	--	--	--	--
--	rs7312991^1,2	A	6530480(+)	`CCCTGC/TCCCCA`	3	--	ng3¹ int¹		0	--	--	--	--
	rs11064253^1,2	C	6535580(+)	`GGCAGA/CGGTCA`	2	--	ng3¹ tfbs³		0	--	--	--	--
--	rs7308717^1,2	A	6529478(+)	`GGTAGC/TGGTGG`	3	--	int¹ ng3¹		0	--	--	--	--
	rs2270177^1,2	A,C,F,H,O	6521942(+)	`CTGAGA/TGAAGA`	3	--	int¹		13		EA EU WA NA	2516
	rs7132183^1,2	A,C,F,H	6522755(+)	`aggccA/Gaatag`	3	--	int¹		4		EU EA WA	374
	rs7297283^1,2	A,C,F,H	6521697(+)	`GAGACC/GTGTCC`	3	--	int¹		3		EU EA	270

About this table

HapMap Linkage Disequilibrium images for IFFO1 (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: 610495

(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

9 PubMed articles for IFFO1 gene:

A novel tumour associated leucine zipper protein targeting to sites of gene transcription and splicing. (PubMed id 12032826)^{3, 4} Tureci O....Pfreundschuh M. (2002)
Intermediate filament proteins. (PubMed id 8771189)^{2, 3} Quinlan R....Lane B. (1995)
Molecular and cellular biology of intermediate filaments. (PubMed id 3052284)^{2, 3} Steinert P.M. and Roop D.R. (1988)
A protein-protein interaction network for human inherited ataxias and disorders of Purkinje cell degeneration. (PubMed id 16713569)³ Lim J....Zoghbi H.Y. (2006)
Towards a proteome-scale map of the human protein-protein interaction network. (PubMed id 16189514)³ Rual J.F....Vidal M. (2005)
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)
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)
About This Section

Entrez Gene: 25900	HGNC: 24970	AceView: HOM-TES-103.3	Ensembl:ENSG00000010295	euGenes: HUgn25900
ECgene: IFFO1	H-InvDB: IFFO1

(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 IFFO1
(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 IFFO1:

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 IFFO1-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 IFFO1		Browse antibodies at Sigma-Aldrich
	Explore super-pooled esiRNAs		Browse proteins at Sigma-Aldrich
	Lentivirus-delivered shRNAs for IFFO1		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

	Recombinant Proteins (HOM-TES-103)
	Antibodies (HOM-TES-103)
	Search for Chimera RNAi
	Custom Service for Mouse Mab
	Custom Service for Rabbit Pab from Full-length Protein

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	Antibodies (IFFO)

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Search Tocris compounds for IFFO1

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Antibodies for IFFO1

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IFFO1 Gene

protein-coding GIFtS: 44

Aliases &
Descriptions
for IFFO1

Summaries
for IFFO1

Genomic Location
for IFFO1

Proteins
for IFFO1

Protein Domains/
Families
for IFFO1

Gene Function
for IFFO1

Pathways & Interactions
for IFFO1

Drugs & Compounds
for IFFO1

Transcripts
for IFFO1

Expression
for IFFO1

Orthologs
for IFFO1

Paralogs
for IFFO1

SNPs/Variants
for IFFO1

Disorders & Mutations
for IFFO1

Medical News
for IFFO1

Publications
for IFFO1

Search for IFFO1

Genome Databases showing IFFO1

Other Databases showing IFFO1

Specialized Databases showing IFFO1

Licensable Technologies
for IFFO1

Services
for IFFO1

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

IFFO1 Gene

protein-coding GIFtS: 44

Aliases & Descriptionsfor IFFO1

Summariesfor IFFO1

Genomic Locationfor IFFO1

Proteinsfor IFFO1

Protein Domains/Familiesfor IFFO1

Gene Functionfor IFFO1

Pathways & Interactionsfor IFFO1

Drugs & Compoundsfor IFFO1

Transcriptsfor IFFO1

Expression for IFFO1

Orthologsfor IFFO1

Paralogsfor IFFO1

SNPs/Variantsfor IFFO1

Disorders & Mutationsfor IFFO1

Medical Newsfor IFFO1

Publicationsfor IFFO1

Search for IFFO1

Genome Databases showing IFFO1

Other Databases showing IFFO1

Specialized Databases showing IFFO1

Licensable Technologiesfor IFFO1

Servicesfor IFFO1

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 IFFO1

Summaries
for IFFO1

Genomic Location
for IFFO1

Proteins
for IFFO1

Protein Domains/
Families
for IFFO1

Gene Function
for IFFO1

Pathways & Interactions
for IFFO1

Drugs & Compounds
for IFFO1

Transcripts
for IFFO1

Expression
for IFFO1

Orthologs
for IFFO1

Paralogs
for IFFO1

SNPs/Variants
for IFFO1

Disorders & Mutations
for IFFO1

Medical News
for IFFO1

Publications
for IFFO1

Licensable Technologies
for IFFO1

Services
for IFFO1