Human Gene HNRNPA3 (ENST00000392524.7_8) from GENCODE V47lift37
  Description: heterogeneous nuclear ribonucleoprotein A3, transcript variant 7 (from RefSeq NR_138470.2)
Gencode Transcript: ENST00000392524.7_8
Gencode Gene: ENSG00000170144.23_16
Transcript (Including UTRs)
   Position: hg19 chr2:178,077,522-178,088,687 Size: 11,166 Total Exon Count: 11 Strand: +
Coding Region
   Position: hg19 chr2:178,077,528-178,084,027 Size: 6,500 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:178,077,522-178,088,687)mRNA (may differ from genome)Protein (378 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ROA3_HUMAN
DESCRIPTION: RecName: Full=Heterogeneous nuclear ribonucleoprotein A3; Short=hnRNP A3;
FUNCTION: Plays a role in cytoplasmic trafficking of RNA. Binds to the cis-acting response element, A2RE. May be involved in pre-mRNA splicing.
SUBUNIT: Identified in the spliceosome C complex.
SUBCELLULAR LOCATION: Nucleus (By similarity). Note=Component of ribonucleosomes.
SIMILARITY: Contains 2 RRM (RNA recognition motif) domains.
CAUTION: An older version of this entry represented the conceptual translation of what was thought to be HNRNPA3 but which was in fact a pseudogene (HNRPA3P1/FBRNP) located on chromosome 10.

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: HNRNPA3
Diseases sorted by gene-association score: dementia, frontotemporal (1)

-  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: 78.28 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 2425.21 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
3' UTR -1145.704567-0.251 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
IPR012677 - Nucleotide-bd_a/b_plait
IPR000504 - RRM_dom

Pfam Domains:
PF00076 - RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)

SCOP Domains:
54928 - RNA-binding domain, RBD

ModBase Predicted Comparative 3D Structure on P51991
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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 DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0003729 mRNA binding
GO:0005515 protein binding
GO:0051033 RNA transmembrane transporter activity

Biological Process:
GO:0000398 mRNA splicing, via spliceosome
GO:0006397 mRNA processing
GO:0008380 RNA splicing
GO:0016070 RNA metabolic process
GO:0051028 mRNA transport

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005681 spliceosomal complex
GO:0005737 cytoplasm
GO:0035770 ribonucleoprotein granule
GO:0043005 neuron projection
GO:0071013 catalytic step 2 spliceosome
GO:1990124 messenger ribonucleoprotein complex
GO:1990904 ribonucleoprotein complex


-  Descriptions from all associated GenBank mRNAs
  AK293125 - Homo sapiens cDNA FLJ52659 complete cds, highly similar to Heterogeneous nuclear ribonucleoprotein A3.
AK316434 - Homo sapiens cDNA, FLJ79333 complete cds, highly similar to Heterogeneous nuclear ribonucleoprotein A3.
AK304687 - Homo sapiens cDNA FLJ58832 complete cds, highly similar to Heterogeneous nuclear ribonucleoprotein A3.
AK303208 - Homo sapiens cDNA FLJ59080 complete cds, highly similar to Heterogeneous nuclear ribonucleoprotein A3.
BX647217 - Homo sapiens mRNA; cDNA DKFZp779E0216 (from clone DKFZp779E0216).
FW340023 - Screening.
BC112027 - Homo sapiens heterogeneous nuclear ribonucleoprotein A3, mRNA (cDNA clone MGC:138232 IMAGE:8327495), complete cds.
BC113470 - Homo sapiens heterogeneous nuclear ribonucleoprotein A3, mRNA (cDNA clone MGC:142030 IMAGE:8322522), complete cds.
GQ900946 - Homo sapiens clone HEL-T-58 epididymis secretory sperm binding protein mRNA, complete cds.
BC064494 - Homo sapiens heterogeneous nuclear ribonucleoprotein A3, mRNA (cDNA clone IMAGE:5922221).
BC012090 - Homo sapiens heterogeneous nuclear ribonucleoprotein A3, mRNA (cDNA clone IMAGE:4661041), **** WARNING: chimeric clone ****.
AY363225 - Homo sapiens heterogeneous nuclear ribonucleoprotein A3 mRNA, complete cds.
LF380835 - JP 2014500723-A/188338: Polycomb-Associated Non-Coding RNAs.
JD504161 - Sequence 485185 from Patent EP1572962.
LF357668 - JP 2014500723-A/165171: Polycomb-Associated Non-Coding RNAs.
BC069022 - Homo sapiens cDNA clone IMAGE:4335313, partial cds.
BC080591 - Homo sapiens heterogeneous nuclear ribonucleoprotein A3, mRNA (cDNA clone IMAGE:4335314), partial cds.
LF367662 - JP 2014500723-A/175165: Polycomb-Associated Non-Coding RNAs.
LF353699 - JP 2014500723-A/161202: Polycomb-Associated Non-Coding RNAs.
AL832246 - Homo sapiens mRNA; cDNA DKFZp686N1377 (from clone DKFZp686N1377).
JD340141 - Sequence 321165 from Patent EP1572962.
JD340253 - Sequence 321277 from Patent EP1572962.
JD222621 - Sequence 203645 from Patent EP1572962.
JD344322 - Sequence 325346 from Patent EP1572962.
JD553233 - Sequence 534257 from Patent EP1572962.
BC032437 - Homo sapiens heterogeneous nuclear ribonucleoprotein A3, mRNA (cDNA clone IMAGE:4432159), partial cds.
LF353698 - JP 2014500723-A/161201: Polycomb-Associated Non-Coding RNAs.
LF356147 - JP 2014500723-A/163650: Polycomb-Associated Non-Coding RNAs.
JD222505 - Sequence 203529 from Patent EP1572962.
JD350219 - Sequence 331243 from Patent EP1572962.
JD089435 - Sequence 70459 from Patent EP1572962.
BC053640 - Homo sapiens cDNA clone IMAGE:4515539, **** WARNING: chimeric clone ****.
AF517524 - Homo sapiens BX1 mRNA, partial cds.
BC061894 - Homo sapiens cDNA clone IMAGE:4426883, partial cds.
JD317215 - Sequence 298239 from Patent EP1572962.
JD317216 - Sequence 298240 from Patent EP1572962.
JD350680 - Sequence 331704 from Patent EP1572962.
JD528423 - Sequence 509447 from Patent EP1572962.
JD200039 - Sequence 181063 from Patent EP1572962.
JD110400 - Sequence 91424 from Patent EP1572962.
JD507803 - Sequence 488827 from Patent EP1572962.
JD423866 - Sequence 404890 from Patent EP1572962.
JD525443 - Sequence 506467 from Patent EP1572962.
JD330678 - Sequence 311702 from Patent EP1572962.
JD363500 - Sequence 344524 from Patent EP1572962.
JD268618 - Sequence 249642 from Patent EP1572962.
JB367476 - Sequence 90 from Patent WO2012038956.
JD496869 - Sequence 477893 from Patent EP1572962.
JD036889 - Sequence 17913 from Patent EP1572962.
JD465959 - Sequence 446983 from Patent EP1572962.
JD158338 - Sequence 139362 from Patent EP1572962.
JD348582 - Sequence 329606 from Patent EP1572962.
JD289059 - Sequence 270083 from Patent EP1572962.
JD499156 - Sequence 480180 from Patent EP1572962.
JD550445 - Sequence 531469 from Patent EP1572962.
JD512283 - Sequence 493307 from Patent EP1572962.
MA603239 - JP 2018138019-A/175165: Polycomb-Associated Non-Coding RNAs.
MA616412 - JP 2018138019-A/188338: Polycomb-Associated Non-Coding RNAs.
MA593245 - JP 2018138019-A/165171: Polycomb-Associated Non-Coding RNAs.
MA589276 - JP 2018138019-A/161202: Polycomb-Associated Non-Coding RNAs.
MA589275 - JP 2018138019-A/161201: Polycomb-Associated Non-Coding RNAs.
MA591724 - JP 2018138019-A/163650: Polycomb-Associated Non-Coding RNAs.

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

Protein P51991 (Reactome details) participates in the following event(s):

R-HSA-72103 Formation of pre-mRNPs
R-HSA-72107 Formation of the Spliceosomal E complex
R-HSA-72124 Formation of the Spliceosomal A Complex
R-HSA-72127 Formation of the Spliceosomal B Complex
R-HSA-72130 Formation of an intermediate Spliceosomal C (Bact) complex
R-HSA-72143 Lariat Formation and 5'-Splice Site Cleavage
R-HSA-72139 Formation of the active Spliceosomal C (B*) complex
R-HSA-156661 Formation of Exon Junction Complex
R-HSA-72203 Processing of Capped Intron-Containing Pre-mRNA
R-HSA-72163 mRNA Splicing - Major Pathway
R-HSA-8953854 Metabolism of RNA
R-HSA-72172 mRNA Splicing

-  Other Names for This Gene
  Alternate Gene Symbols: D3DPF4, ENST00000392524.1, ENST00000392524.2, ENST00000392524.3, ENST00000392524.4, ENST00000392524.5, ENST00000392524.6, HNRPA3, NR_138470, P51991, Q53RW7, Q6URK5, ROA3_HUMAN, uc318vdx.1, uc318vdx.2
UCSC ID: ENST00000392524.7_8
RefSeq Accession: NM_194247.4
Protein: P51991 (aka ROA3_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.