Human Gene AGO4 (ENST00000373210.4_4) from GENCODE V47lift37
  Description: argonaute RISC component 4, transcript variant 2 (from RefSeq NR_146062.2)
Gencode Transcript: ENST00000373210.4_4
Gencode Gene: ENSG00000134698.11_7
Transcript (Including UTRs)
   Position: hg19 chr1:36,273,617-36,323,491 Size: 49,875 Total Exon Count: 18 Strand: +
Coding Region
   Position: hg19 chr1:36,274,018-36,319,206 Size: 45,189 Coding Exon Count: 18 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:36,273,617-36,323,491)mRNA (may differ from genome)Protein (861 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIOMIMPubMedReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: AGO4_HUMAN
DESCRIPTION: RecName: Full=Protein argonaute-4; Short=Argonaute4; Short=hAgo4; AltName: Full=Eukaryotic translation initiation factor 2C 4; Short=eIF-2C 4; Short=eIF2C 4;
FUNCTION: Required for RNA-mediated gene silencing (RNAi). Binds to short RNAs such as microRNAs (miRNAs) and represses the translation of mRNAs which are complementary to them. Lacks endonuclease activity and does not appear to cleave target mRNAs. Also required for RNA-directed transcription and replication of the human hapatitis delta virus (HDV).
SUBUNIT: Interacts with EIF4B, IMP8, PRMT5, TNRC6A and TNRC6B.
INTERACTION: O15397:IPO8; NbExp=3; IntAct=EBI-2269696, EBI-358808;
SUBCELLULAR LOCATION: Cytoplasm, P-body.
SIMILARITY: Belongs to the argonaute family. Ago subfamily.
SIMILARITY: Contains 1 PAZ domain.
SIMILARITY: Contains 1 Piwi domain.
SEQUENCE CAUTION: Sequence=BAB13393.1; 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.
Click here to open Exonprimer with this transcript

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


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 12.68 RPKM in Spleen
Total median expression: 327.88 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -262.20401-0.654 Picture PostScript Text
3' UTR -1216.104285-0.284 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
IPR014811 - DUF1785
IPR003100 - PAZ
IPR003165 - Piwi
IPR012337 - RNaseH-like_dom

Pfam Domains:
PF02170 - PAZ domain
PF02171 - Piwi domain
PF08699 - Argonaute linker 1 domain
PF16486 - N-terminal domain of argonaute
PF16487 - Mid domain of argonaute
PF16488 - Argonaute linker 2 domain

SCOP Domains:
101690 - PAZ domain
53098 - Ribonuclease H-like

ModBase Predicted Comparative 3D Structure on Q9HCK5
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  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.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0003725 double-stranded RNA binding
GO:0003727 single-stranded RNA binding
GO:0005515 protein binding
GO:0035198 miRNA binding

Biological Process:
GO:0006402 mRNA catabolic process
GO:0006417 regulation of translation
GO:0007130 synaptonemal complex assembly
GO:0007140 male meiosis
GO:0007223 Wnt signaling pathway, calcium modulating pathway
GO:0008584 male gonad development
GO:0010501 RNA secondary structure unwinding
GO:0010586 miRNA metabolic process
GO:0022604 regulation of cell morphogenesis
GO:0031047 gene silencing by RNA
GO:0031054 pre-miRNA processing
GO:0035194 posttranscriptional gene silencing by RNA
GO:0035196 production of miRNAs involved in gene silencing by miRNA
GO:0035278 miRNA mediated inhibition of translation
GO:0035280 miRNA loading onto RISC involved in gene silencing by miRNA
GO:0043066 negative regulation of apoptotic process
GO:0045652 regulation of megakaryocyte differentiation
GO:0035279 mRNA cleavage involved in gene silencing by miRNA
GO:0090625 mRNA cleavage involved in gene silencing by siRNA

Cellular Component:
GO:0000932 P-body
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0016020 membrane
GO:0016442 RISC complex
GO:0016604 nuclear body
GO:0035068 micro-ribonucleoprotein complex
GO:0070578 RISC-loading complex


-  Descriptions from all associated GenBank mRNAs
  AB046787 - Homo sapiens KIAA1567 mRNA for KIAA1567 protein.
BC152450 - Homo sapiens eukaryotic translation initiation factor 2C, 4, mRNA (cDNA clone MGC:176703 IMAGE:8862582), complete cds.
AB463034 - Synthetic construct DNA, clone: pF1KA1567, Homo sapiens EIF2C4 gene for eukaryotic translation initiation factor 2C, 4, without stop codon, in Flexi system.
BC160021 - Synthetic construct Homo sapiens clone IMAGE:100063957, MGC:193136 eukaryotic translation initiation factor 2C, 4 (EIF2C4) mRNA, encodes complete protein.
AL831908 - Homo sapiens mRNA; cDNA DKFZp547H229 (from clone DKFZp547H229).
AK000040 - Homo sapiens cDNA FLJ20033 fis, clone COL00106.
JC506661 - Sequence 29 from Patent EP2733220.
JC737773 - Sequence 29 from Patent WO2014075939.
JC506666 - Sequence 34 from Patent EP2733220.
JC737778 - Sequence 34 from Patent WO2014075939.
JC506674 - Sequence 42 from Patent EP2733220.
JC737786 - Sequence 42 from Patent WO2014075939.
JC506688 - Sequence 56 from Patent EP2733220.
JC737800 - Sequence 56 from Patent WO2014075939.
JC506674 - Sequence 42 from Patent EP2733220.
JC737786 - Sequence 42 from Patent WO2014075939.
JC506661 - Sequence 29 from Patent EP2733220.
JC737773 - Sequence 29 from Patent WO2014075939.
JC506688 - Sequence 56 from Patent EP2733220.
JC737800 - Sequence 56 from Patent WO2014075939.
JC506666 - Sequence 34 from Patent EP2733220.
JC737778 - Sequence 34 from Patent WO2014075939.
BC016012 - Homo sapiens, clone IMAGE:4690259, mRNA.
MP015277 - Sequence 480 from Patent WO2019016252.
MP015277 - Sequence 480 from Patent WO2019016252.
JD319126 - Sequence 300150 from Patent EP1572962.
DQ577321 - Homo sapiens piRNA piR-45433, complete sequence.
JD309324 - Sequence 290348 from Patent EP1572962.
JD354653 - Sequence 335677 from Patent EP1572962.
JD350566 - Sequence 331590 from Patent EP1572962.
JD281333 - Sequence 262357 from Patent EP1572962.
JD048045 - Sequence 29069 from Patent EP1572962.
JD418569 - Sequence 399593 from Patent EP1572962.
JD247921 - Sequence 228945 from Patent EP1572962.
JD048727 - Sequence 29751 from Patent EP1572962.
JD058527 - Sequence 39551 from Patent EP1572962.
JD539582 - Sequence 520606 from Patent EP1572962.
JD455796 - Sequence 436820 from Patent EP1572962.
JD259167 - Sequence 240191 from Patent EP1572962.
JD421308 - Sequence 402332 from Patent EP1572962.
JD433762 - Sequence 414786 from Patent EP1572962.
JD128811 - Sequence 109835 from Patent EP1572962.
JD273605 - Sequence 254629 from Patent EP1572962.
JD502491 - Sequence 483515 from Patent EP1572962.
JD557747 - Sequence 538771 from Patent EP1572962.
JD137103 - Sequence 118127 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9HCK5 (Reactome details) participates in the following event(s):

R-HSA-426522 Nonendonucleolytic RISC binds exactly matching target RNAs
R-HSA-426489 RISC binds inexactly matching target RNAs
R-HSA-3209151 miR-24 binds p16-INK4a and p14-ARF mRNAs
R-HSA-8935766 miR-378 binds RUNX1 mRNA
R-HSA-8937134 miR-27a binds RUNX1 mRNA
R-HSA-8938440 miR-17 binds RUNX1 mRNA
R-HSA-8938487 miR-20a binds RUNX1 mRNA
R-HSA-8938507 miR-106a binds RUNX1 mRNA
R-HSA-8944650 miR-214 microRNA binds PTEN mRNA
R-HSA-8944706 miR-21 nonendonucleolytic RISC binds PTEN mRNA
R-HSA-203862 Dicer cleaves pre-miRNA to yield duplex miRNA
R-HSA-426464 Dicer cleaves double-stranded RNA to yield double-stranded siRNA
R-HSA-1606561 MIR449 microRNAs bind 3'UTR of NOTCH1 mRNA
R-HSA-1606682 MIR34 microRNAs bind 3'UTR of NOTCH1 mRNA
R-HSA-1912367 MIR34 microRNAs bind 3'UTR of NOTCH2 mRNA
R-HSA-1912363 MIR200B/C microRNAs bind NOTCH1 mRNA
R-HSA-1912366 MIR206 microRNA binds 3'UTR of NOTCH3 mRNA
R-HSA-1912368 MIR302A microRNA binds 3'UTR of NOTCH4 mRNA
R-HSA-1912364 MIR181C microRNA binds 3'UTR of NOTCH4 mRNA
R-HSA-1912362 MIR150 microRNA binds 3'UTR of NOTCH3 mRNA
R-HSA-2318752 miR-26A microRNAs bind PTEN mRNA
R-HSA-8935864 miR-302b binds RUNX1 mRNA
R-HSA-8935930 miR-18a binds RUNX1 mRNA
R-HSA-8936058 miR-675 binds RUNX1 mRNA
R-HSA-8944483 miR-17 microRNA binds PTEN mRNA
R-HSA-8948582 miR-17 microRNA binds VAPA mRNA
R-HSA-8948583 miR-17 microRNA binds CNOT6L mRNA
R-HSA-8939129 miR-215 binds RUNX1 mRNA
R-HSA-8948524 PTENP1 mRNA binds miR-19b RISC
R-HSA-8948569 miR-19b microRNA binds PTEN mRNA
R-HSA-8948612 miR-19b microRNA binds CNOT6L mRNA
R-HSA-8944538 miR-22 microRNA binds PTEN mRNA
R-HSA-8944569 miR-25 microRNA binds PTEN mRNA
R-HSA-8944599 miR-93 microRNA binds PTEN mRNA
R-HSA-8944632 miR-106 microRNAs bind PTEN mRNA
R-HSA-8948641 miR-106 microRNAs bind VAPA mRNA
R-HSA-8948651 miR-106a,(miR106b) microRNA binds CNOT6L mRNA
R-HSA-8944684 miR-205 microRNA binds PTEN mRNA
R-HSA-8945709 miR-20 microRNAs bind PTEN mRNA
R-HSA-8948536 PTENP1 mRNA binds miR-20 RISC
R-HSA-8948621 miR-20 microRNAs bind VAPA mRNA
R-HSA-8948623 miR-20 microRNAs bind CNOT6L mRNA
R-HSA-8944522 miR-19a microRNA binds PTEN mRNA
R-HSA-8948594 miR-19a microRNA binds VAPA mRNA
R-HSA-8948602 miR-19a microRNA binds CNOT6L mRNA
R-HSA-9011958 miR-26A and B bind to the 3'UTR of the GREB1 mRNA
R-HSA-9012203 miR-26A and B bind to the 3'UTR of the CHD11 mRNA
R-HSA-9012208 miR-26A and B bind to the 3'UTR of the KPNA2 mRNA
R-HSA-426496 Post-transcriptional silencing by small RNAs
R-HSA-211000 Gene Silencing by RNA
R-HSA-2559580 Oxidative Stress Induced Senescence
R-HSA-2559585 Oncogene Induced Senescence
R-HSA-8934593 Regulation of RUNX1 Expression and Activity
R-HSA-8936459 RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function
R-HSA-8943723 Regulation of PTEN mRNA translation
R-HSA-203927 MicroRNA (miRNA) biogenesis
R-HSA-426486 Small interfering RNA (siRNA) biogenesis
R-HSA-74160 Gene expression (Transcription)
R-HSA-1912408 Pre-NOTCH Transcription and Translation
R-HSA-5628897 TP53 Regulates Metabolic Genes
R-HSA-2559583 Cellular Senescence
R-HSA-4086398 Ca2+ pathway
R-HSA-5687128 MAPK6/MAPK4 signaling
R-HSA-8878171 Transcriptional regulation by RUNX1
R-HSA-8948700 Competing endogenous RNAs (ceRNAs) regulate PTEN translation
R-HSA-6807070 PTEN Regulation
R-HSA-1912422 Pre-NOTCH Expression and Processing
R-HSA-9018519 Estrogen-dependent gene expression
R-HSA-3700989 Transcriptional Regulation by TP53
R-HSA-2262752 Cellular responses to stress
R-HSA-3858494 Beta-catenin independent WNT signaling
R-HSA-5683057 MAPK family signaling cascades
R-HSA-212436 Generic Transcription Pathway
R-HSA-1257604 PIP3 activates AKT signaling
R-HSA-157118 Signaling by NOTCH
R-HSA-8939211 ESR-mediated signaling
R-HSA-8953897 Cellular responses to external stimuli
R-HSA-195721 Signaling by WNT
R-HSA-162582 Signal Transduction
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-9006925 Intracellular signaling by second messengers
R-HSA-9006931 Signaling by Nuclear Receptors

-  Other Names for This Gene
  Alternate Gene Symbols: A7MD27, AGO4_HUMAN, EIF2C4, ENST00000373210.1, ENST00000373210.2, ENST00000373210.3, KIAA1567, NR_146062, Q9HCK5, uc318kox.1, uc318kox.2
UCSC ID: ENST00000373210.4_4
RefSeq Accession: NM_017629.4
Protein: Q9HCK5 (aka AGO4_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.