Human Gene NYNRIN (ENST00000382554.4_4) from GENCODE V47lift37
  Description: NYN domain and retroviral integrase containing (from RefSeq NM_025081.3)
Gencode Transcript: ENST00000382554.4_4
Gencode Gene: ENSG00000205978.6_7
Transcript (Including UTRs)
   Position: hg19 chr14:24,868,209-24,888,489 Size: 20,281 Total Exon Count: 9 Strand: +
Coding Region
   Position: hg19 chr14:24,868,453-24,886,652 Size: 18,200 Coding Exon Count: 8 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:24,868,209-24,888,489)mRNA (may differ from genome)Protein (1898 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: NYNRI_HUMAN
DESCRIPTION: RecName: Full=Protein NYNRIN; AltName: Full=NYN domain and retroviral integrase catalytic domain-containing protein; AltName: Full=Protein cousin of GIN1;
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein (Potential).
MISCELLANEOUS: The gene encoding this protein may have arisen from the fusion of a cellular gene with retroviral sequences prior to the marsupial-eutherian split. Sequence and structural analyses suggest that the integrase catalytic domain is inactive.
SIMILARITY: Contains 1 integrase catalytic domain.
SEQUENCE CAUTION: Sequence=AAH65283.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence;

-  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: NYNRIN
Diseases sorted by gene-association score: endocervical carcinoma (11)

-  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: 28.99 RPKM in Brain - Cerebellum
Total median expression: 322.34 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 -43.70101-0.433 Picture PostScript Text
3' UTR -669.601837-0.365 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
IPR001584 - Integrase_cat-core
IPR021869 - RNase_Zc3h12
IPR012337 - RNaseH-like_dom

Pfam Domains:
PF11977 - Zc3h12a-like Ribonuclease NYN domain
PF17917 - RNase H-like domain found in reverse transcriptase
PF17919 - RNase H-like domain found in reverse transcriptase
PF17921 - Integrase zinc binding domain

SCOP Domains:
53098 - Ribonuclease H-like
56672 - DNA/RNA polymerases

ModBase Predicted Comparative 3D Structure on Q9P2P1
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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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003674 molecular_function
GO:0003676 nucleic acid binding

Biological Process:
GO:0008150 biological_process
GO:0015074 DNA integration

Cellular Component:
GO:0005575 cellular_component
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  BC065283 - Homo sapiens KIAA1305, mRNA (cDNA clone IMAGE:6170040), partial cds.
AK021873 - Homo sapiens cDNA FLJ11811 fis, clone HEMBA1006349.
JD196013 - Sequence 177037 from Patent EP1572962.
JD408750 - Sequence 389774 from Patent EP1572962.
AB037726 - Homo sapiens mRNA for KIAA1305 protein, partial cds.
JD403415 - Sequence 384439 from Patent EP1572962.
JD380997 - Sequence 362021 from Patent EP1572962.
JD537149 - Sequence 518173 from Patent EP1572962.
BX248773 - human full-length cDNA 5-PRIME end of clone CS0DI075YF05 of Placenta of Homo sapiens (human).
JD565541 - Sequence 546565 from Patent EP1572962.
JD375203 - Sequence 356227 from Patent EP1572962.
JD555441 - Sequence 536465 from Patent EP1572962.
JD521266 - Sequence 502290 from Patent EP1572962.
JD131557 - Sequence 112581 from Patent EP1572962.
JD101450 - Sequence 82474 from Patent EP1572962.
JD155511 - Sequence 136535 from Patent EP1572962.
JD533933 - Sequence 514957 from Patent EP1572962.
JD540984 - Sequence 522008 from Patent EP1572962.
JD479072 - Sequence 460096 from Patent EP1572962.
JD552808 - Sequence 533832 from Patent EP1572962.
JD509840 - Sequence 490864 from Patent EP1572962.
JD126716 - Sequence 107740 from Patent EP1572962.
JD051758 - Sequence 32782 from Patent EP1572962.
JD335857 - Sequence 316881 from Patent EP1572962.
JD266736 - Sequence 247760 from Patent EP1572962.
BC008219 - Homo sapiens KIAA1305, mRNA (cDNA clone IMAGE:3865984), complete cds.
KJ902965 - Synthetic construct Homo sapiens clone ccsbBroadEn_12359 NYNRIN gene, encodes complete protein.
JD188996 - Sequence 170020 from Patent EP1572962.
JD346949 - Sequence 327973 from Patent EP1572962.
JD221646 - Sequence 202670 from Patent EP1572962.
JD475765 - Sequence 456789 from Patent EP1572962.
JD254378 - Sequence 235402 from Patent EP1572962.
JD289567 - Sequence 270591 from Patent EP1572962.
JD055999 - Sequence 37023 from Patent EP1572962.
JD536085 - Sequence 517109 from Patent EP1572962.
JD269306 - Sequence 250330 from Patent EP1572962.
JD250641 - Sequence 231665 from Patent EP1572962.
JD334910 - Sequence 315934 from Patent EP1572962.
JD551210 - Sequence 532234 from Patent EP1572962.
JD185046 - Sequence 166070 from Patent EP1572962.
JD440769 - Sequence 421793 from Patent EP1572962.
JD137433 - Sequence 118457 from Patent EP1572962.
JD360279 - Sequence 341303 from Patent EP1572962.
JD354517 - Sequence 335541 from Patent EP1572962.
JD113595 - Sequence 94619 from Patent EP1572962.
JD134454 - Sequence 115478 from Patent EP1572962.
JD293669 - Sequence 274693 from Patent EP1572962.
JD167089 - Sequence 148113 from Patent EP1572962.
JD280187 - Sequence 261211 from Patent EP1572962.
JD493349 - Sequence 474373 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: CGIN1, ENST00000382554.1, ENST00000382554.2, ENST00000382554.3, KIAA1305, NM_025081, NYNRI_HUMAN, Q6P153, Q86TR3, Q9HAC4, Q9P2P1, uc318qxg.1, uc318qxg.2
UCSC ID: ENST00000382554.4_4
RefSeq Accession: NM_025081.3
Protein: Q9P2P1 (aka NYNRI_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.