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Aliases & Descriptions for ABCF1
(According to
1 HGNC ,
2 Entrez Gene ,
3 UniProtKB/Swiss-Prot ,
4 UniProtKB/TrEMBL , 5 OMIM , 6 GeneLoc
, and/or 7 Ensembl ,
8 miRBase )About This Section
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Aliases ABC27 2 ABC50 2 , 3 , 5 EST123147 1 OTTHUMP00000029110 2 OTTHUMP00000029111 2
Descriptions ATP-binding cassette 50 3 ATP-binding cassette 50 (TNF-alpha stimulated) 2 ATP-binding cassette, sub-family F (GCN20), member 1 2 ATP-binding cassette, sub-family F, member 1 2 TNF-alpha-stimulated ABC protein 3 TNFalpha-inducible ATP-binding protein 2
Search outside databases for aliases for ABCF1 genePrevious GC identifers: GC06P030594 GC06P030309 GC06P030645
Summaries for ABCF1 (According to Entrez Gene ,
Wikipedia's
Gene Wiki ,
UniProtKB/Swiss-Prot ,
and/or
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EntrezGene summary for ABCF1 : The protein encoded by this gene is a member of the superfamily of ATP-binding cassette (ABC)transporters. ABC proteins transport various molecules across extra- and intra-cellular membranes.ABC genes are divided into seven distinct subfamilies (ABC1, MDR/TAP, MRP, ALD, OABP, GCN20,White). This protein is a member of the GCN20 subfamily. Unlike other members of the superfamily,this protein lacks the transmembrane domains which are characteristic of most ABC transporters.This protein may be regulated by tumor necrosis factor-alpha and play a role in enhancement ofprotein synthesis and the inflammation process. [provided by RefSeq] UniProtKB/Swiss-Prot: ABCF1_HUMAN, Q8NE71 Function : May function in mRNA translation (By similarity)
Gene Wiki entry for ABCF1
Genomic Location for ABCF1
(According to
GeneLoc and/or
HGNC , and/or
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and/or miRBase ,
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Transcription factor binding sites according to
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Genomic View : UCSC Golden Path with GeneCards custom track Transcription factor binding sites upstream to the ABCF1 gene Entrez Gene cytogenetic band: 6p21.33 Ensembl cytogenetic band: 6p21.33 HGNC cytogenetic band: 6p21.33 ABCF1 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 6 GeneLoc Exon Structure
GeneLoc location for GC06P030647:
(about GC identifiers )
Start:
30,647,149 bp from pter
End:
30,667,288 bp from pter
Size:
20,140 bases
Orientation:
plus strand
2 alternative locations : Chr 6+,c6_COX 30,676,254-30,696,406 Chr 6+,c6_QBL 30,671,532-30,691,667
RefSeq DNA sequence: NC_000006.10 NT_007592.14 NT_113891.1 NT_113893.1 Proteins for ABCF1
(According to
1 UniProtKB ,
and/or Ensembl ,
Phosphorylation sites according to 2 Phosphosite ,
RefSeq according to NCBI ,
PDB rendering according to OCA and/or Proteopedia ,
Recombinant Proteins
from Invitrogen ,
Millipore ,
Sigma-Aldrich ,
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OriGene and/or,
Abcam ,
Biochemical Assays by
Invitrogen ,
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R&D Systems ,
Cell Signaling Technology , and/or
Enzo Life Sciences ,
Ontologies according to Gene
Ontology Consortium 01 Apr 2009 and
Entrez Gene ,
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R&D Systems ,
Cell Signaling Technology ,
Abcam ,
Abnova , and/or
Novus Biologicals )
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UniProtKB/Swiss-Prot: ABCF1_HUMAN, Q8NE71 (See
protein sequence )Recommended Name: ATP-binding cassette sub-family F member 1 Size : 845 amino acids; 95926 Da
Subunit : Interacts with eukaryotic initiation factor 2 (eIF2). Associates with the ribosomes (Bysimilarity)
Secondary accessions : O14897 Q69YP6Alternative splicing : 2 isoforms : Q8NE71-1 Q8NE71-2
Post-translational modifications:
Phosphorylated upon DNA damage, probably by ATM or ATR1
View phosphorylation sites using PhosphoSite 2
REFSEQ proteins (2 alternative transcripts):
NP_001020262.1 NP_001081.1 ENSEMBL proteins: ENSP00000313603 ENSP00000365728 ENSP00000379772 Human Recombinant Proteins Browse Origene for full length recombinant human proteins expressed in human HEK293 cells Antibodies for ABCF1: Assays for ABCF1:
Protein
Domains/ Families for ABCF1(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 Q8NE71 ProtoNet protein and cluster: Q8NE71
UniProtKB/Swiss-Prot: ABCF1_HUMAN, Q8NE71 Similarity : Belongs to the ABC transporter family. EF3 subfamilySimilarity : Contains 2 ABC transporter domains
Gene Function for ABCF1
(According to MGI Jun 06 2009, UniProtKB ,
IUBMB ,and/or Genatlas ,
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Cell-based Assays from Millipore ,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene .)
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               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2 ): NM_001090 Applied Biosystems Silencer ® siRNAs for ABCF1 Sigma-Aldrich siRNA for ABCF1 Sigma-Aldrich shRNA for ABCF1 Explore Sigma-Aldrich super-pooled esiRNAs                OriGene GFP tagged cDNA clones in CMV expression vector (see all 2 ): NM_001025091                                  Myc/DDK tagged cDNA clones in CMV expression vector (see all 2 ): NM_001025091                                  untagged cDNA clones in CMV expression vector (see all 2 ): NM_001025091  Primers: Browse
Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers               OriGene genome-wide validated SYBR primer pairs: NM_001025091 UniProtKB/Swiss-Prot: ABCF1_HUMAN, Q8NE71 Function : May function in mRNA translation (By similarity)Induction : By TNF (in cultured synoviocytes)
Genatlas biochemistry entry for ABCF1 :ATP binding cassette superfamily,subfamily F (GCN20) member 1,widely expressed,putative ribosomalprotein,involved in translation of mRNA,present in synoviocytes after TNFA induction,potentiallyinvolved in inflammatory process 5 Gene Ontology (GO) molecular function terms (links to tree view) :
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Pathways & Interactions for ABCF1
(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 1 UniProtKB ,
2 MINT , and/or
3 STRING ,
with links to IntAct and
Ensembl ,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene .)
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Gene Network CentralTM Interacting Genes and Proteins Network for ABCF1 1 Interacting protein for ABCF1 (Q8NE71 2 ) via UniProtKB, MINT, and/or STRING About this table 2 Gene Ontology (GO) biological process terms (links to tree view) :
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Drugs & Compounds for ABCF1 (Chemical Compounds according to UniProtKB , Enzo Life Sciences ,
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Novoseek and Drugs according to
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Transcripts for ABCF1(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
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ESTs according to GeneTide ,
exon structure from GeneLoc ,
alternative splicing isoforms according to ASD and/or
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               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2 ): NM_001090 Sigma-Aldrich siRNA for ABCF1 Sigma-Aldrich shRNA for ABCF1 Explore Sigma-Aldrich super-pooled esiRNAs
Applied Biosystems Silencer ® siRNAs: NM_001025091 NM_001090
REFSEQ mRNAs for ABCF1 gene (2 alternative transcripts): NM_001025091.1 NM_001090.2
Applied Biosystems TaqMan ® Gene Expression Assays: NM_001025091 NM_001090
               OriGene GFP tagged cDNA clones in CMV expression vector (see all 2 ): NM_001025091                                  Myc/DDK tagged cDNA clones in CMV expression vector (see all 2 ): NM_001025091                                  untagged cDNA clones in CMV expression vector (see all 2 ): NM_001025091  
Additional cDNA sequence: AB209564.1 AF027302.1 AF075071.1 AK298061.1 AK307551.1 AL832430.1 BC016772.1 BC034488.2 BC112923.1 CR591008.1 CR606523.1 U66677.1
16 DOTS entries : DT.100815058 DT.101984925 DT.217889 DT.92442036 DT.100815063 DT.95108905 DT.121360162 DT.97769090 DT.100815055 DT.95258527 DT.40190068 DT.100815060 DT.121360120 DT.121360366 DT.95189966 DT.97855263
24/391 AceView cDNA sequences (see all 391
):BQ951527 CB243302 BU620927 AA237011 BQ001284 BM666238 BQ054175 AI167633 BQ954679 BM762693 BE698513 F07368 AA339120 BM468644 AA197173 BM893863 BQ678264 BQ962497 BQ060931 AA486482 C02340 BQ073631 BU187212 CR591008
highest scoring ESTs for ABCF1 :R49296 AF027302 AW860237 BE698504 BE698513 BE764997 BF086911 BQ315622 BQ315625 BQ315723
Unigene Cluster for ABCF1: ATP-binding cassette, sub-family F (GCN20), member 1 Hs.655285 [show with all ESTs ] Unigene Representative Sequence: NM_001025091 GeneLoc Exon Structure 3 Ensembl transcripts including schematic representations : ENST00000326195
ENST00000376545
ENST00000396515
Expression for ABCF1
(Experimental results according to
1 GeneNote
and GNF BioGPS ,
probe sets-to-genes annotations according to
2 GeneAnnot ,
3 GeneTide ,
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
)
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ABCF1 expression in normal and diseased human tissues Applied Biosystems TaqMan ® Gene Expression Assays for ABCF1 1 / 2 / 3
3 probe-sets matching ABCF1 gene Data from
(Publications) and GNF BioGPS About these images About these images CGAP SAGE TAG: AAGGTGGAGTSOURCE GeneReport for Unigene cluster: Hs.655285 Expression variation in blood from EXPOLDB for ABCF1
UniProtKB/Swiss-Prot: ABCF1_HUMAN, Q8NE71 Tissue specificity : Ubiquitous
Orthologs for ABCF1
(Orthologs according to
1,2 HomoloGene (2 older version, for species not in 1 newer version),
3 euGenes ,
4 SGD
and/or
5 MGI Jun 06 2009,
with possible further links to
Flybase
and/or
WormBase ,
Gene Trees according to Ensembl )
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Orthologs for ABCF1 gene from 5/15 species (see all 15
)
Organism
Gene
Locus
Description
Human Similarity
NCBI accessions
dog (Canis familiaris)
ABCF11
--
ATP-binding cassette, sub-family F (GCN20), member more
91.1(n) 96.64(a)
474826 XM_532056.2 XP_532056.2
chimpanzee (Pan troglodytes)
ABCF11
--
ATP-binding cassette, sub-family F (GCN20), member more
99.38(n) 99.5(a)
462543 NM_001042379.1 NP_001035838.1
cow (Bos taurus)
ABCF11
--
ATP-binding cassette, sub-family F (GCN20), member more
90.96(n) 97.86(a)
525343 XM_603695.3 XP_603695.3
rat (Rattus norvegicus)
Abcf11
--
ATP-binding cassette, sub-family F (GCN20), member more
86.87(n) 92.84(a)
85493 XM_001062137.1 XP_001062137.1
mouse (Mus musculus)
Abcf11 , 5
17 (20.50 cM) 5
ATP-binding cassette, sub-family F (GCN20), member more 1, 5
86.52(n) 1 91.87(a) 1
224742 1 NM_013854.1 1 NP_038882.1 1 AA144398 5 AA408356 5 (see all 26 )
About this table Species with no ortholog for ABCF1 ENSEMBL Gene Tree for ABCF1 Paralogs for ABCF1 (Paralogs according to 1 HomoloGene and 2 Ensembl , Pseudogenes according to 3 Pseudogene.org )About This Section
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Paralogs for ABCF1 gene ABCF3 2 ABCF2 2
SNPs/Variants for ABCF1 (According to the
1 NCBI SNP Database ,
2 Ensembl ,
3 PupaSUITE , and
UniProtKB ,
Linkage Disequilibrium by HapMap ,
Genotyping Reagents from
Applied Biosystems )
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HapMap Linkage Disequilibrium images for ABCF1 (up to first 250kb)
Disorders & Mutations for ABCF1
(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 .)
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OMIM: 603429 Human Genome Epidemiology Navigator: ABCF1 (2 documents)
Medical News for ABCF1 (Possibly Related Articles in
Doctor's Guide )
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--
Publications for ABCF1 (in
PubMed .
Associations of this gene to articles via
1 Novoseek ,
2 HGNC ,
3 Entrez Gene ,
4 UniProtKB/Swiss-Prot ,
5 UniProtKB/TrEMBL ,
6 GAD , and/or
7 PharmGKB )
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10/25 PubMed articles for ABCF1 gene (see all 25
): ABC50, a novel human ATP-binding cassette protein found in tumor necrosis factor-alpha-stimulated synoviocytes. (PubMed id 9790762) 2, 3, 4 Richard M.... Beaulieu A.D. (1998) A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PubMed id 16964243) 3, 4 Beausoleil S.A.... Gygi S.P. (2006) Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983) 3, 4 Olsen J.V....Mann M. (2006) 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) Large-scale characterization of HeLa cell nuclear phosphoproteins. (PubMed id 15302935) 3, 4 Beausoleil S.A....Gygi S.P. (2004) The DNA sequence and analysis of human chromosome 6. (PubMed id 14574404) 3, 4 Mungall A.J.... Beck S. (2003) The N-terminal region of ABC50 interacts with eukaryotic initiation factor eIF2 and is a target for regulatory phosphorylation by CK2. (PubMed id 17894550) 1, 3 Paytubi S....Proud C.G. (2008) Association study between single-nucleotide polymorphisms in 199 drug-related genes and commonly measured quantitative traits of 752 healthy Japanese subjects. (PubMed id 19343046) 3 Saito A....Kamatani N. (2009) Phosphoproteome of resting human platelets. (PubMed id 18088087) 4 Zahedi R.P.... Sickmann A. (2008) Automated phosphoproteome analysis for cultured cancer cells by two- dimensional nanoLC-MS using a calcined titania/C18 biphasic column. (PubMed id 18187866) 4 Imami K.... Ishihama Y. (2008)
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Genome Databases showing ABCF1
(According to
Entrez Gene ,
HGNC ,
AceView ,
euGenes ,
Ensembl ,
miRBase ,
ECgene ,
and/or
H-InvDB )
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Other Databases showing ABCF1
(According to HUGE )
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--
Specialized Databases showing ABCF1 (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
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-- Services for ABCF1 (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
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