Human Gene RTKN2 (ENST00000373789.8_7) from GENCODE V47lift37
  Description: rhotekin 2, transcript variant 1 (from RefSeq NM_145307.4)
Gencode Transcript: ENST00000373789.8_7
Gencode Gene: ENSG00000182010.11_9
Transcript (Including UTRs)
   Position: hg19 chr10:63,952,845-64,028,603 Size: 75,759 Total Exon Count: 12 Strand: -
Coding Region
   Position: hg19 chr10:63,957,667-64,028,369 Size: 70,703 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr10:63,952,845-64,028,603)mRNA (may differ from genome)Protein (609 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIOMIMPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RTKN2_HUMAN
DESCRIPTION: RecName: Full=Rhotekin-2; AltName: Full=Pleckstrin homology domain-containing family K member 1; Short=PH domain-containing family K member 1;
FUNCTION: May play an important role in lymphopoiesis.
TISSUE SPECIFICITY: Expressed in lymphocytes, CD4 positive T-cells and bone marrow-derived cells. Also expressed in lung, colon, thymus and brain.
INDUCTION: Up-regulated in cells resistant to 25-hydroxy cholesterol (25-OHC). Down-regulated in lymphocytes activated by treatment with phytohemagglutinin (PHA).
SIMILARITY: Contains 1 PH domain.
SEQUENCE CAUTION: Sequence=BAC04837.1; Type=Erroneous initiation; Sequence=BC048002; Type=Miscellaneous discrepancy; Note=Intron retention;

-  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: 5.96 RPKM in Lung
Total median expression: 18.76 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -110.00234-0.470 Picture PostScript Text
3' UTR -1055.504822-0.219 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
IPR012966 - DUF1709
IPR011072 - HR1_rho-bd
IPR011993 - PH_like_dom
IPR001849 - Pleckstrin_homology

Pfam Domains:
PF00169 - PH domain
PF08174 - Cell division protein anillin

SCOP Domains:
46585 - HR1 repeat
50729 - PH domain-like

ModBase Predicted Comparative 3D Structure on Q8IZC4
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 BrowserNo ortholog
Gene DetailsGene Details  Gene Details 
Gene SorterGene Sorter  Gene Sorter 
 RGDEnsembl WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0007165 signal transduction
GO:0030097 hemopoiesis


-  Descriptions from all associated GenBank mRNAs
  LF208783 - JP 2014500723-A/16286: Polycomb-Associated Non-Coding RNAs.
AK096671 - Homo sapiens cDNA FLJ39352 fis, clone PEBLM2001312, weakly similar to Homo sapiens rhotekin mRNA.
AY150309 - Homo sapiens rhotekin-2 (RTKN2) mRNA, complete cds.
BC048002 - Homo sapiens rhotekin 2, mRNA (cDNA clone IMAGE:5270162), with apparent retained intron.
BC160167 - Synthetic construct Homo sapiens clone IMAGE:100064199, MGC:193282 rhotekin 2 (RTKN2) mRNA, encodes complete protein.
MA444360 - JP 2018138019-A/16286: Polycomb-Associated Non-Coding RNAs.
KJ905043 - Synthetic construct Homo sapiens clone ccsbBroadEn_14437 RTKN2 gene, encodes complete protein.
JD554117 - Sequence 535141 from Patent EP1572962.
JD566759 - Sequence 547783 from Patent EP1572962.
JD248366 - Sequence 229390 from Patent EP1572962.
JD109352 - Sequence 90376 from Patent EP1572962.
JD113009 - Sequence 94033 from Patent EP1572962.
CR749217 - Homo sapiens mRNA; cDNA DKFZp686J10120 (from clone DKFZp686J10120).
JD233473 - Sequence 214497 from Patent EP1572962.
JD183195 - Sequence 164219 from Patent EP1572962.
JD353516 - Sequence 334540 from Patent EP1572962.
JD533931 - Sequence 514955 from Patent EP1572962.
JD232952 - Sequence 213976 from Patent EP1572962.
JD161329 - Sequence 142353 from Patent EP1572962.
JD539677 - Sequence 520701 from Patent EP1572962.
JD088329 - Sequence 69353 from Patent EP1572962.
JD312580 - Sequence 293604 from Patent EP1572962.
JD538626 - Sequence 519650 from Patent EP1572962.
JD259311 - Sequence 240335 from Patent EP1572962.
JD228741 - Sequence 209765 from Patent EP1572962.
JD386779 - Sequence 367803 from Patent EP1572962.
JD299973 - Sequence 280997 from Patent EP1572962.
JD262805 - Sequence 243829 from Patent EP1572962.
JD164249 - Sequence 145273 from Patent EP1572962.
JD369243 - Sequence 350267 from Patent EP1572962.
JD239811 - Sequence 220835 from Patent EP1572962.
JD371555 - Sequence 352579 from Patent EP1572962.
JD145495 - Sequence 126519 from Patent EP1572962.
JD250733 - Sequence 231757 from Patent EP1572962.
JD091608 - Sequence 72632 from Patent EP1572962.
JD195391 - Sequence 176415 from Patent EP1572962.
JD449526 - Sequence 430550 from Patent EP1572962.
LF322777 - JP 2014500723-A/130280: Polycomb-Associated Non-Coding RNAs.
JD281076 - Sequence 262100 from Patent EP1572962.
LF322776 - JP 2014500723-A/130279: Polycomb-Associated Non-Coding RNAs.
JD328577 - Sequence 309601 from Patent EP1572962.
JD052285 - Sequence 33309 from Patent EP1572962.
JD088545 - Sequence 69569 from Patent EP1572962.
LF322775 - JP 2014500723-A/130278: Polycomb-Associated Non-Coding RNAs.
JD280040 - Sequence 261064 from Patent EP1572962.
JD245404 - Sequence 226428 from Patent EP1572962.
JD552160 - Sequence 533184 from Patent EP1572962.
JD300380 - Sequence 281404 from Patent EP1572962.
JD081688 - Sequence 62712 from Patent EP1572962.
JD241890 - Sequence 222914 from Patent EP1572962.
JD315775 - Sequence 296799 from Patent EP1572962.
JD348842 - Sequence 329866 from Patent EP1572962.
JD345247 - Sequence 326271 from Patent EP1572962.
JD358862 - Sequence 339886 from Patent EP1572962.
JD208032 - Sequence 189056 from Patent EP1572962.
JD053281 - Sequence 34305 from Patent EP1572962.
MA558354 - JP 2018138019-A/130280: Polycomb-Associated Non-Coding RNAs.
MA558353 - JP 2018138019-A/130279: Polycomb-Associated Non-Coding RNAs.
MA558352 - JP 2018138019-A/130278: Polycomb-Associated Non-Coding RNAs.
BC141821 - Homo sapiens rhotekin 2, mRNA (cDNA clone IMAGE:40148149), complete cds.
BC142725 - Homo sapiens rhotekin 2, mRNA (cDNA clone IMAGE:40148911), complete cds.
BC025765 - Homo sapiens rhotekin 2, mRNA (cDNA clone IMAGE:5205817), complete cds.
LF322769 - JP 2014500723-A/130272: Polycomb-Associated Non-Coding RNAs.
MA558346 - JP 2018138019-A/130272: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000373789.1, ENST00000373789.2, ENST00000373789.3, ENST00000373789.4, ENST00000373789.5, ENST00000373789.6, ENST00000373789.7, NM_145307, PLEKHK1, Q3ZCR1, Q68DZ6, Q8IZC4, Q8N8K1, Q8TAV2, RTKN2_HUMAN, uc318lbe.1, uc318lbe.2
UCSC ID: ENST00000373789.8_7
RefSeq Accession: NM_145307.4
Protein: Q8IZC4 (aka RTKN2_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.