Human Gene ABCF3 (ENST00000429586.7_8) from GENCODE V47lift37

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Description: ATP binding cassette subfamily F member 3, transcript variant 1 (from RefSeq NM_018358.3)
Gencode Transcript: ENST00000429586.7_8
Gencode Gene: ENSG00000161204.12_10
Transcript (Including UTRs)
Position: hg19 chr3:183,903,987-183,911,793 Size: 7,807 Total Exon Count: 21 Strand: +
Coding Region
Position: hg19 chr3:183,903,996-183,911,486 Size: 7,491 Coding Exon Count: 21

Page Index	Sequence and Links	UniProtKB Comments	Primers	MalaCards	CTD
Gene Alleles	RNA-Seq Expression	Microarray Expression	RNA Structure	Protein Structure	Other Species
GO Annotations	mRNA Descriptions	Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr3:183,903,987-183,911,793)			mRNA (may differ from genome)		Protein (709 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	Malacards	MGI	OMIM	PubMed	UniProtKB
BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: ABCF3_HUMAN DESCRIPTION: RecName: Full=ATP-binding cassette sub-family F member 3; FUNCTION: Displays an antiviral effect against flaviviruses such as west Nile virus (WNV) in the presence of OAS1B (By similarity). SIMILARITY: Belongs to the ABC transporter superfamily. ABCF family. EF3 subfamily. SIMILARITY: Contains 2 ABC transporter domains. CAUTION: Lacks transmembrane domains and is probably not involved in transport. SEQUENCE CAUTION: Sequence=BAB14989.1; Type=Erroneous initiation;

Primer design for this transcript

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
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To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3

MalaCards Disease Associations


	MalaCards Gene Search: ABCF3 Diseases sorted by gene-association score: west nile virus (2)

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene D013749 Tetrachlorodibenzodioxin C016403 2,4-dinitrotoluene C023514 2,6-dinitrotoluene D000082 Acetaminophen D002994 Clofibrate D004785 Environmental Pollutants D004997 Ethinyl Estradiol D012643 Selenium D014284 Triiodothyronine D014635 Valproic Acid C029892 cupric chloride C069837 fullerene C60

Common Gene Haplotype Alleles


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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)


	Highest median expression: 66.35 RPKM in Adrenal Gland Total median expression: 1069.04 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

Microarray Expression Data


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mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
3' UTR	-118.50	307	-0.386	Picture	PostScript	Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

Protein Domain and Structure Information

InterPro Domains: Graphical view of domain structure
IPR003593 - AAA+_ATPase
IPR003439 - ABC_transporter-like
IPR017871 - ABC_transporter_CS

Pfam Domains:
PF00005 - ABC transporter
PF12848 - ABC transporter

SCOP Domains:
52540 - P-loop containing nucleoside triphosphate hydrolases
53795 - PEP carboxykinase-like

ModBase Predicted Comparative 3D Structure on Q9NUQ8


Front	Top	Side

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Orthologous Genes in Other Species

Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	No ortholog	Genome Browser
Gene Details	Gene Details		Gene Details		Gene Details
Gene Sorter	Gene Sorter		Gene Sorter		Gene Sorter
	RGD	Ensembl			SGD
					Protein Sequence
					Alignment

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0000166 nucleotide binding GO:0005515 protein binding GO:0005524 ATP binding GO:0016887 ATPase activity GO:0045296 cadherin binding Biological Process: GO:0051607 defense response to virus Cellular Component: GO:0016020 membrane

Descriptions from all associated GenBank mRNAs


	AK002060 - Homo sapiens cDNA FLJ11198 fis, clone PLACE1007697, weakly similar to GCN20 PROTEIN. AK092415 - Homo sapiens cDNA FLJ35096 fis, clone PLACE6006217, weakly similar to GCN20 PROTEIN. AK097073 - Homo sapiens cDNA FLJ39754 fis, clone SMINT2018353, moderately similar to GCN20 PROTEIN. AK299433 - Homo sapiens cDNA FLJ57179 complete cds, highly similar to Homo sapiens ATP-binding cassette, sub-family F (GCN20), member 3 (ABCF3), mRNA. AK299256 - Homo sapiens cDNA FLJ58418 complete cds, highly similar to Homo sapiens ATP-binding cassette, sub-family F (GCN20), member 3 (ABCF3), mRNA. BC009253 - Homo sapiens ATP-binding cassette, sub-family F (GCN20), member 3, mRNA (cDNA clone MGC:4555 IMAGE:3028775), complete cds. AK027288 - Homo sapiens cDNA FLJ14382 fis, clone HEMBA1001913, moderately similar to GCN20 PROTEIN. BC051754 - Homo sapiens ATP-binding cassette, sub-family F (GCN20), member 3, mRNA (cDNA clone MGC:51850 IMAGE:6064628), complete cds. BC035652 - Homo sapiens ATP-binding cassette, sub-family F (GCN20), member 3, mRNA (cDNA clone IMAGE:5587596). BC051884 - Homo sapiens ATP-binding cassette, sub-family F (GCN20), member 3, mRNA (cDNA clone MGC:60284 IMAGE:5105761), complete cds. CU690830 - Synthetic construct Homo sapiens gateway clone IMAGE:100021502 5' read ABCF3 mRNA. CU679275 - Synthetic construct Homo sapiens gateway clone IMAGE:100020032 5' read ABCF3 mRNA. JF432237 - Synthetic construct Homo sapiens clone IMAGE:100073403 ATP-binding cassette, sub-family F (GCN20), member 3 (ABCF3) gene, encodes complete protein. KJ894186 - Synthetic construct Homo sapiens clone ccsbBroadEn_03580 ABCF3 gene, encodes complete protein. AK290106 - Homo sapiens cDNA FLJ78266 complete cds, highly similar to Homo sapiens ATP-binding cassette, sub-family F (GCN20), member 3, mRNA. KJ899124 - Synthetic construct Homo sapiens clone ccsbBroadEn_08518 ABCF3 gene, encodes complete protein. KU178694 - Homo sapiens ATP-binding cassette sub-family F member 3 isoform 1 (ABCF3) mRNA, partial cds. KU178695 - Homo sapiens ATP-binding cassette sub-family F member 3 isoform 2 (ABCF3) mRNA, complete cds, alternatively spliced. AK024758 - Homo sapiens cDNA: FLJ21105 fis, clone CAS05114. AK126150 - Homo sapiens cDNA FLJ44162 fis, clone THYMU2033079, highly similar to Mus musculus ATP-binding cassette protein (Abcf3). U66685 - Homo sapiens clone EST201864 mRNA sequence. JD209134 - Sequence 190158 from Patent EP1572962. JD174247 - Sequence 155271 from Patent EP1572962. JD457091 - Sequence 438115 from Patent EP1572962. JD540038 - Sequence 521062 from Patent EP1572962. JD174618 - Sequence 155642 from Patent EP1572962. JD496007 - Sequence 477031 from Patent EP1572962. JD554757 - Sequence 535781 from Patent EP1572962. JD265411 - Sequence 246435 from Patent EP1572962.

Other Names for This Gene


	Alternate Gene Symbols: A8K241, ABCF3_HUMAN, ENST00000429586.1, ENST00000429586.2, ENST00000429586.3, ENST00000429586.4, ENST00000429586.5, ENST00000429586.6, NM_018358, Q86UA2, Q8NAN1, Q96GS8, Q9H7A8, Q9NUQ8, uc319yma.1, uc319yma.2 UCSC ID: ENST00000429586.7_8 RefSeq Accession: NM_018358.3 Protein: Q9NUQ8 (aka ABCF3_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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