Human Gene NARF (ENST00000309794.16_6) from GENCODE V47lift37
  Description: nuclear prelamin A recognition factor, transcript variant 2 (from RefSeq NM_031968.2)
Gencode Transcript: ENST00000309794.16_6
Gencode Gene: ENSG00000141562.19_13
Transcript (Including UTRs)
   Position: hg19 chr17:80,416,617-80,448,413 Size: 31,797 Total Exon Count: 11 Strand: +
Coding Region
   Position: hg19 chr17:80,416,680-80,446,033 Size: 29,354 Coding Exon Count: 11 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:80,416,617-80,448,413)mRNA (may differ from genome)Protein (456 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: NARF_HUMAN
DESCRIPTION: RecName: Full=Nuclear prelamin A recognition factor; AltName: Full=Iron-only hydrogenase-like protein 2; Short=IOP2;
SUBUNIT: Interacts with LMNA and binds to the farnesylated C- terminal domain.
SUBCELLULAR LOCATION: Nucleus.
TISSUE SPECIFICITY: Ubiquitous. Predominantly expressed in skeletal muscle, heart and brain.
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR.
SIMILARITY: Belongs to the NARF 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


-  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: 28.02 RPKM in Testis
Total median expression: 476.38 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 -23.9063-0.379 Picture PostScript Text
3' UTR -887.602380-0.373 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
IPR009016 - Fe_hydrogenase
IPR004108 - Fe_hydrogenase_lsu_C
IPR003149 - Fe_hydrogenase_ssu-like

Pfam Domains:
PF02256 - Iron hydrogenase small subunit
PF02906 - Iron only hydrogenase large subunit, C-terminal domain

SCOP Domains:
48674 - Fe-only hydrogenase smaller subunit
53920 - Fe-only hydrogenase

ModBase Predicted Comparative 3D Structure on Q9UHQ1
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 DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003954 NADH dehydrogenase activity
GO:0005521 lamin binding
GO:0051536 iron-sulfur cluster binding

Biological Process:
GO:0055114 oxidation-reduction process

Cellular Component:
GO:0005634 nucleus
GO:0005638 lamin filament
GO:0005652 nuclear lamina
GO:0005730 nucleolus
GO:0031981 nuclear lumen


-  Descriptions from all associated GenBank mRNAs
  AK056966 - Homo sapiens cDNA FLJ32404 fis, clone SKMUS2000380, highly similar to Homo sapiens nuclear prelamin A recognition factor (NARF), transcript variant 1, mRNA.
AK297875 - Homo sapiens cDNA FLJ52706 complete cds, moderately similar to Homo sapiens nuclear prelamin A recognition factor (NARF), transcript variant 1, mRNA.
BC000438 - Homo sapiens nuclear prelamin A recognition factor, mRNA (cDNA clone MGC:8398 IMAGE:2820621), complete cds.
AK307351 - Homo sapiens cDNA, FLJ97299.
AK303155 - Homo sapiens cDNA FLJ55037 complete cds, highly similar to Homo sapiens nuclear prelamin A recognition factor (NARF), transcript variant 1, mRNA.
AK000929 - Homo sapiens cDNA FLJ10067 fis, clone HEMBA1001526, weakly similar to PERIPLASMIC [FE] HYDROGENASE 1 (EC 1.18.99.1).
AF128406 - Homo sapiens nuclear prelamin A recognition factor mRNA, complete cds.
BC016440 - Homo sapiens nuclear prelamin A recognition factor, mRNA (cDNA clone MGC:17011 IMAGE:3447710), complete cds.
CU674220 - Synthetic construct Homo sapiens gateway clone IMAGE:100017373 5' read NARF mRNA.
CU677625 - Synthetic construct Homo sapiens gateway clone IMAGE:100017204 5' read NARF mRNA.
HQ448225 - Synthetic construct Homo sapiens clone IMAGE:100071626; CCSB003176_01 nuclear prelamin A recognition factor (NARF) gene, encodes complete protein.
KJ898624 - Synthetic construct Homo sapiens clone ccsbBroadEn_08018 NARF gene, encodes complete protein.
KJ898625 - Synthetic construct Homo sapiens clone ccsbBroadEn_08019 NARF gene, encodes complete protein.
AL137729 - Homo sapiens mRNA; cDNA DKFZp434G0420 (from clone DKFZp434G0420).
AK093717 - Homo sapiens cDNA FLJ36398 fis, clone THYMU2009592, highly similar to Homo sapiens nuclear prelamin A recognition factor (NARF), transcript variant 1, mRNA.
AX748274 - Sequence 1799 from Patent EP1308459.
EF601655 - Homo sapiens clone 1 nuclear prelamin A recognition factor (NARF) mRNA, partial cds.
EF601656 - Homo sapiens clone 2 nuclear prelamin A recognition factor (NARF) mRNA, partial cds.
JD110890 - Sequence 91914 from Patent EP1572962.
JD180492 - Sequence 161516 from Patent EP1572962.
JD534137 - Sequence 515161 from Patent EP1572962.
JD254736 - Sequence 235760 from Patent EP1572962.
JD098258 - Sequence 79282 from Patent EP1572962.
JD317426 - Sequence 298450 from Patent EP1572962.
JD104174 - Sequence 85198 from Patent EP1572962.
JD384946 - Sequence 365970 from Patent EP1572962.
JD098258 - Sequence 79282 from Patent EP1572962.
JD317426 - Sequence 298450 from Patent EP1572962.
JD104174 - Sequence 85198 from Patent EP1572962.
JD203980 - Sequence 185004 from Patent EP1572962.
JD368058 - Sequence 349082 from Patent EP1572962.
JD305916 - Sequence 286940 from Patent EP1572962.
JD281478 - Sequence 262502 from Patent EP1572962.
JD492084 - Sequence 473108 from Patent EP1572962.
JD032304 - Sequence 13328 from Patent EP1572962.
JD293436 - Sequence 274460 from Patent EP1572962.
JD417041 - Sequence 398065 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A6NCJ3, B3KPX2, ENST00000309794.1, ENST00000309794.10, ENST00000309794.11, ENST00000309794.12, ENST00000309794.13, ENST00000309794.14, ENST00000309794.15, ENST00000309794.2, ENST00000309794.3, ENST00000309794.4, ENST00000309794.5, ENST00000309794.6, ENST00000309794.7, ENST00000309794.8, ENST00000309794.9, K4DI98, NARF_HUMAN, NM_031968, Q96AY9, Q9BWC6, Q9UHQ1, uc317opi.1, uc317opi.2
UCSC ID: ENST00000309794.16_6
RefSeq Accession: NM_012336.4
Protein: Q9UHQ1 (aka NARF_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.