Human Gene REG3A (ENST00000409839.7) from GENCODE V44
  Description: Homo sapiens regenerating family member 3 alpha (REG3A), transcript variant 3, mRNA. (from RefSeq NM_138937)
RefSeq Summary (NM_138937): This gene encodes a pancreatic secretory protein that may be involved in cell proliferation or differentiation. It has similarity to the C-type lectin superfamily. The enhanced expression of this gene is observed during pancreatic inflammation and liver carcinogenesis. The mature protein also functions as an antimicrobial protein with antibacterial activity. Alternate splicing results in multiple transcript variants that encode the same protein.[provided by RefSeq, Nov 2014].
Gencode Transcript: ENST00000409839.7
Gencode Gene: ENSG00000172016.16
Transcript (Including UTRs)
   Position: hg38 chr2:79,157,003-79,159,753 Size: 2,751 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg38 chr2:79,157,226-79,159,405 Size: 2,180 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA Descriptions
Other NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:79,157,003-79,159,753)mRNA (may differ from genome)Protein (175 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCLynxMalacardsMGIOMIMPubMed
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: Q53S56_HUMAN
DESCRIPTION: SubName: Full=Proliferation-inducing protein 34; SubName: Full=Proliferation-inducing protein 42; SubName: Full=Putative uncharacterized protein PAP; SubName: Full=Regenerating islet-derived 3 alpha, isoform CRA_a; SubName: Full=cDNA FLJ76569, highly similar to Homo sapiens regenerating islet-derived 3 alpha (REG3A), transcript variant 1, mRNA;
SIMILARITY: Contains 1 C-type lectin domain.

-  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: REG3A
Diseases sorted by gene-association score: pancreatitis (33), acute pancreatitis (6), cystic fibrosis (2), pancreatic cancer (2), pancreatitis, hereditary (2), pancreas disease (1), mesenteric lymphadenitis (1)

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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 1446.43 RPKM in Small Intestine - Terminal Ileum
Total median expression: 1972.52 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 -0.7037-0.019 Picture PostScript Text
3' UTR -49.43223-0.222 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
IPR001304 - C-type_lectin
IPR016186 - C-type_lectin-like
IPR018378 - C-type_lectin_CS
IPR016187 - C-type_lectin_fold

Pfam Domains:
PF00059 - Lectin C-type domain

ModBase Predicted Comparative 3D Structure on Q53S56
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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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Descriptions from all associated GenBank mRNAs
  BC036776 - Homo sapiens regenerating islet-derived 3 alpha, mRNA (cDNA clone MGC:46207 IMAGE:5749980), complete cds.
M84337 - Human pancreatitis associated protein mRNA, complete cds.
S51768 - PAP-H=pancreatitis-associated protein [human, pancreas, mRNA, 797 nt].
X68641 - H.sapiens HIP mRNA.
D13510 - Homo sapiens mRNA for PAP homologous protein, complete cds.
JD114155 - Sequence 95179 from Patent EP1572962.
JD087270 - Sequence 68294 from Patent EP1572962.
JD553070 - Sequence 534094 from Patent EP1572962.
JD250472 - Sequence 231496 from Patent EP1572962.
JD123025 - Sequence 104049 from Patent EP1572962.
JD441504 - Sequence 422528 from Patent EP1572962.
AY544128 - Homo sapiens proliferation-inducing protein 34 mRNA, complete cds.
AK291973 - Homo sapiens cDNA FLJ76569 complete cds, highly similar to Homo sapiens regenerating islet-derived 3 alpha (REG3A), transcript variant 1, mRNA.
AY544130 - Homo sapiens proliferation-inducing protein 42 mRNA, complete cds.
E07528 - DNA sequences coding human Pancreatitis-Associated Protein(PAP).
DQ890717 - Synthetic construct clone IMAGE:100003347; FLH165413.01X; RZPDo839B12160D regenerating islet-derived 3 alpha (REG3A) gene, encodes complete protein.
KJ891751 - Synthetic construct Homo sapiens clone ccsbBroadEn_01145 REG3A gene, encodes complete protein.
DQ893897 - Synthetic construct Homo sapiens clone IMAGE:100008357; FLH165409.01L; RZPDo839B12159D regenerating islet-derived 3 alpha (REG3A) gene, encodes complete protein.
AB464134 - Synthetic construct DNA, clone: pF1KB6845, Homo sapiens REG3A gene for regenerating islet-derived 3 alpha, without stop codon, in Flexi system.
AK311526 - Homo sapiens cDNA, FLJ18568.
AK311523 - Homo sapiens cDNA, FLJ18565.
JD103061 - Sequence 84085 from Patent EP1572962.
JD391772 - Sequence 372796 from Patent EP1572962.
JD134512 - Sequence 115536 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000409839.1, ENST00000409839.2, ENST00000409839.3, ENST00000409839.4, ENST00000409839.5, ENST00000409839.6, hCG_39519, NM_138937, PAP, Q53S56, Q53S56_HUMAN, uc002sof.1, uc002sof.2, uc002sof.3
UCSC ID: ENST00000409839.7
RefSeq Accession: NM_138937
Protein: Q53S56 CCDS: CCDS1965.1

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