Human Gene RNGTT (ENST00000369485.9_7) from GENCODE V47lift37
  Description: RNA guanylyltransferase and 5'-phosphatase, transcript variant 1 (from RefSeq NM_003800.5)
Gencode Transcript: ENST00000369485.9_7
Gencode Gene: ENSG00000111880.16_9
Transcript (Including UTRs)
   Position: hg19 chr6:89,319,616-89,673,337 Size: 353,722 Total Exon Count: 16 Strand: -
Coding Region
   Position: hg19 chr6:89,322,438-89,673,128 Size: 350,691 Coding Exon Count: 16 

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 (chr6:89,319,616-89,673,337)mRNA (may differ from genome)Protein (597 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: MCE1_HUMAN
DESCRIPTION: RecName: Full=mRNA-capping enzyme; AltName: Full=HCAP1; AltName: Full=HCE; Includes: RecName: Full=Polynucleotide 5'-triphosphatase; EC=3.1.3.33; AltName: Full=mRNA 5'-triphosphatase; Short=TPase; Includes: RecName: Full=mRNA guanylyltransferase; EC=2.7.7.50; AltName: Full=GTP--RNA guanylyltransferase; Short=GTase;
FUNCTION: Bifunctional mRNA-capping enzyme exhibiting RNA 5'- triphosphatase activity in the N-terminal part and mRNA guanylyltransferase activity in the C-terminal part. Catalyzes the first two steps of cap formation: by removing the gamma-phosphate from the 5'-triphosphate end of nascent mRNA to yield a diphosphate end, and by transferring the gmp moiety of GTP to the 5'-diphosphate terminus.
CATALYTIC ACTIVITY: A 5'-phosphopolynucleotide + H(2)O = a polynucleotide + phosphate.
CATALYTIC ACTIVITY: GTP + (5')pp-Pur-mRNA = diphosphate + G(5')ppp-Pur-mRNA.
SUBUNIT: Interacts with SUPT5H and RNMT. Interacts with HIV-1 Tat.
SUBCELLULAR LOCATION: Nucleus (By similarity).
TISSUE SPECIFICITY: Isoform 1 and isoform 4 (at a lesser extent) are expressed in cerebrum, cerebellum, thyroid, lung, heart, liver, kidney, spleen, large intestine, testis, skin and muscle.
MISCELLANEOUS: Isoform 2 to isoform 4 lack mRNA 5'- guanylyltransferase activity due to disruptions of the GTase domain.
SIMILARITY: In the N-terminal section; belongs to the non-receptor class of the protein-tyrosine phosphatase family.
SIMILARITY: In the C-terminal section; belongs to the eukaryotic GTase family.

-  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: RNGTT
Diseases sorted by gene-association score: cecum adenocarcinoma (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 13.65 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 187.47 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 -81.30209-0.389 Picture PostScript Text
3' UTR -676.902822-0.240 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
IPR000340 - Dual-sp_phosphatase_cat-dom
IPR017074 - mRNA_cap_enz_bifunc
IPR001339 - mRNA_cap_enzyme
IPR013846 - mRNA_cap_enzyme_C
IPR012340 - NA-bd_OB-fold
IPR016027 - NA-bd_OB-fold-like
IPR000387 - Tyr/Dual-specificity_Pase
IPR016130 - Tyr_Pase_AS

Pfam Domains:
PF00782 - Dual specificity phosphatase, catalytic domain
PF01331 - mRNA capping enzyme, catalytic domain
PF03919 - mRNA capping enzyme, C-terminal domain

SCOP Domains:
50249 - Nucleic acid-binding proteins
52799 - (Phosphotyrosine protein) phosphatases II
56091 - DNA ligase/mRNA capping enzyme, catalytic domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2C46 - X-ray MuPIT 3S24 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on O60942
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 orthologGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsembl WormBaseSGD
    Protein SequenceProtein Sequence
    AlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003824 catalytic activity
GO:0004484 mRNA guanylyltransferase activity
GO:0004651 polynucleotide 5'-phosphatase activity
GO:0004725 protein tyrosine phosphatase activity
GO:0005515 protein binding
GO:0005525 GTP binding
GO:0008138 protein tyrosine/serine/threonine phosphatase activity
GO:0008192 RNA guanylyltransferase activity
GO:0016740 transferase activity
GO:0016779 nucleotidyltransferase activity
GO:0016787 hydrolase activity
GO:0016791 phosphatase activity
GO:0050355 triphosphatase activity

Biological Process:
GO:0006366 transcription from RNA polymerase II promoter
GO:0006370 7-methylguanosine mRNA capping
GO:0006396 RNA processing
GO:0006397 mRNA processing
GO:0006470 protein dephosphorylation
GO:0008152 metabolic process
GO:0016032 viral process
GO:0016311 dephosphorylation
GO:0035335 peptidyl-tyrosine dephosphorylation
GO:0098507 polynucleotide 5' dephosphorylation

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm


-  Descriptions from all associated GenBank mRNAs
  AF025654 - Homo sapiens mRNA capping enzyme (HCE) mRNA, complete cds.
BC019954 - Homo sapiens RNA guanylyltransferase and 5'-phosphatase, mRNA (cDNA clone MGC:9536 IMAGE:3923156), complete cds.
AB012142 - Homo sapiens hCAP1a mRNA for mRNA capping enzyme, complete cds.
AK299777 - Homo sapiens cDNA FLJ50195 complete cds, highly similar to mRNA capping enzyme.
AK295719 - Homo sapiens cDNA FLJ51692 complete cds, highly similar to mRNA capping enzyme.
AB009022 - Homo sapiens HCE1 mRNA for capping enzyme 1, complete cds.
AB009023 - Homo sapiens HCE1A mRNA for capping enzyme 1A, complete cds.
AK312407 - Homo sapiens cDNA, FLJ92740, highly similar to Homo sapiens RNA guanylyltransferase and 5'-phosphatase (RNGTT), mRNA.
JF432295 - Synthetic construct Homo sapiens clone IMAGE:100073473 RNA guanylyltransferase and 5'-phosphatase (RNGTT) gene, encodes complete protein.
KJ897897 - Synthetic construct Homo sapiens clone ccsbBroadEn_07291 RNGTT gene, encodes complete protein.
AB385589 - Synthetic construct DNA, clone: pF1KB9518, Homo sapiens RNGTT gene for mRNA-capping enzyme, complete cds, without stop codon, in Flexi system.
AB012143 - Homo sapiens hCAP1b mRNA for mRNA capping enzyme, complete cds.
AB009024 - Homo sapiens HCE1B mRNA for capping enzyme 1B, complete cds.
CU676488 - Synthetic construct Homo sapiens gateway clone IMAGE:100020339 5' read RNGTT mRNA.
BX537450 - Homo sapiens mRNA; cDNA DKFZp686J2031 (from clone DKFZp686J2031).
JD082665 - Sequence 63689 from Patent EP1572962.
JD359561 - Sequence 340585 from Patent EP1572962.
JD320310 - Sequence 301334 from Patent EP1572962.
JD154785 - Sequence 135809 from Patent EP1572962.
JD224060 - Sequence 205084 from Patent EP1572962.
JD326091 - Sequence 307115 from Patent EP1572962.
JD118148 - Sequence 99172 from Patent EP1572962.
JD511002 - Sequence 492026 from Patent EP1572962.
JD324056 - Sequence 305080 from Patent EP1572962.
JD299150 - Sequence 280174 from Patent EP1572962.
JD539730 - Sequence 520754 from Patent EP1572962.
JD250053 - Sequence 231077 from Patent EP1572962.
JD078275 - Sequence 59299 from Patent EP1572962.
JD078699 - Sequence 59723 from Patent EP1572962.
JD110150 - Sequence 91174 from Patent EP1572962.
JD288505 - Sequence 269529 from Patent EP1572962.
JD347363 - Sequence 328387 from Patent EP1572962.
JD531496 - Sequence 512520 from Patent EP1572962.
JD559160 - Sequence 540184 from Patent EP1572962.
JD085619 - Sequence 66643 from Patent EP1572962.
JD301835 - Sequence 282859 from Patent EP1572962.
JD291707 - Sequence 272731 from Patent EP1572962.
JD175063 - Sequence 156087 from Patent EP1572962.
JD439042 - Sequence 420066 from Patent EP1572962.
JD435211 - Sequence 416235 from Patent EP1572962.
JD133774 - Sequence 114798 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCyc Knowledge Library
PWY-7375 - mRNA capping I
PWY-7379 - mRNA capping II

Reactome (by CSHL, EBI, and GO)

Protein O60942 (Reactome details) participates in the following event(s):

R-HSA-77069 RNA Polymerase II CTD (phosphorylated) binds to CE
R-HSA-167128 RNA Polymerase II CTD (phosphorylated) binds to CE
R-HSA-77068 Activation of GT
R-HSA-77073 SPT5 subunit of Pol II binds the RNA triphosphatase (RTP)
R-HSA-77077 Capping complex formation
R-HSA-77090 Methylation of GMP-cap by RNA Methyltransferase
R-HSA-167133 Activation of GT
R-HSA-167153 SPT5 subunit of Pol II binds the RNA triphosphatase (RTP)
R-HSA-77078 Hydrolysis of the 5'-end of the nascent transcript by the capping enzyme
R-HSA-77081 Formation of the CE:GMP intermediate complex
R-HSA-77085 Dissociation of transcript with 5'-GMP from GT
R-HSA-77083 Transfer of GMP from the capping enzyme GT site to 5'-end of mRNA
R-HSA-72086 mRNA Capping
R-HSA-77075 RNA Pol II CTD phosphorylation and interaction with CE
R-HSA-167160 RNA Pol II CTD phosphorylation and interaction with CE during HIV infection
R-HSA-8953854 Metabolism of RNA
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-167172 Transcription of the HIV genome
R-HSA-74160 Gene expression (Transcription)
R-HSA-162599 Late Phase of HIV Life Cycle
R-HSA-162587 HIV Life Cycle
R-HSA-162906 HIV Infection
R-HSA-5663205 Infectious disease
R-HSA-1643685 Disease

-  Other Names for This Gene
  Alternate Gene Symbols: CAP1A, E1P513, E1P514, ENST00000369485.1, ENST00000369485.2, ENST00000369485.3, ENST00000369485.4, ENST00000369485.5, ENST00000369485.6, ENST00000369485.7, ENST00000369485.8, MCE1_HUMAN, NM_003800, O43483, O60257, O60351, O60942, Q5TCW8, Q8WUM8, uc318hpj.1, uc318hpj.2
UCSC ID: ENST00000369485.9_7
RefSeq Accession: NM_003800.5
Protein: O60942 (aka MCE1_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.