Human Gene NCKAP1 (uc002upb.4)
  Description: Homo sapiens NCK-associated protein 1 (NCKAP1), transcript variant 2, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr2:183,789,579-183,903,586 Size: 114,008 Total Exon Count: 32 Strand: -
Coding Region
   Position: hg19 chr2:183,790,430-183,902,827 Size: 112,398 Coding Exon Count: 32 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:183,789,579-183,903,586)mRNA (may differ from genome)Protein (1134 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMalacards
MGIOMIMPubMedReactomeUniProtKBWikipedia
BioGrid CRISPR DB

-  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: NCKAP1
Diseases sorted by gene-association score: nance-horan syndrome (9)

-  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: 15.48 RPKM in Artery - Tibial
Total median expression: 464.73 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 -413.06759-0.544 Picture PostScript Text
3' UTR -175.80851-0.207 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
  Pfam Domains:
PF09735 - Membrane-associated apoptosis protein

ModBase Predicted Comparative 3D Structure on Q9Y2A7-2
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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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  LF205738 - JP 2014500723-A/13241: Polycomb-Associated Non-Coding RNAs.
AB011159 - Homo sapiens KIAA0587 mRNA for KIAA0587 protein.
BC015025 - Homo sapiens NCK-associated protein 1, mRNA (cDNA clone MGC:8981 IMAGE:3907646), complete cds.
AB014509 - Homo sapiens mRNA for Nck-associated protein 1 (Nap1), complete cds.
AK292914 - Homo sapiens cDNA FLJ78656 complete cds, highly similar to Homo sapiens NCK-associated protein 1 (NCKAP1), transcript variant 1, mRNA.
BT007033 - Homo sapiens NCK-associated protein 1 mRNA, complete cds.
AB383914 - Synthetic construct DNA, clone: pF1KSDA0587, Homo sapiens NCKAP1 gene for NCK-associated protein 1, complete cds, without stop codon, in Flexi system.
DQ893545 - Synthetic construct clone IMAGE:100006175; FLH164594.01X; RZPDo839H11162D NCK-associated protein 1 (NCKAP1) gene, encodes complete protein.
DQ893809 - Synthetic construct Homo sapiens clone IMAGE:100008269; FLH164590.01L; RZPDo839H11161D NCK-associated protein 1 (NCKAP1) gene, encodes complete protein.
MA441315 - JP 2018138019-A/13241: Polycomb-Associated Non-Coding RNAs.
AK001291 - Homo sapiens cDNA FLJ10429 fis, clone NT2RP1000413, highly similar to Nck-associated protein 1.
JD551595 - Sequence 532619 from Patent EP1572962.
JD093839 - Sequence 74863 from Patent EP1572962.
JD145454 - Sequence 126478 from Patent EP1572962.
JD090799 - Sequence 71823 from Patent EP1572962.
LF347641 - JP 2014500723-A/155144: Polycomb-Associated Non-Coding RNAs.
JD297207 - Sequence 278231 from Patent EP1572962.
JD262932 - Sequence 243956 from Patent EP1572962.
AK002153 - Homo sapiens cDNA FLJ11291 fis, clone PLACE1009659, highly similar to Nck-associated protein 1.
LF347643 - JP 2014500723-A/155146: Polycomb-Associated Non-Coding RNAs.
LF347649 - JP 2014500723-A/155152: Polycomb-Associated Non-Coding RNAs.
LF347650 - JP 2014500723-A/155153: Polycomb-Associated Non-Coding RNAs.
LF347654 - JP 2014500723-A/155157: Polycomb-Associated Non-Coding RNAs.
LF347655 - JP 2014500723-A/155158: Polycomb-Associated Non-Coding RNAs.
LF347656 - JP 2014500723-A/155159: Polycomb-Associated Non-Coding RNAs.
LF347659 - JP 2014500723-A/155162: Polycomb-Associated Non-Coding RNAs.
LF347661 - JP 2014500723-A/155164: Polycomb-Associated Non-Coding RNAs.
LF347662 - JP 2014500723-A/155165: Polycomb-Associated Non-Coding RNAs.
LF347663 - JP 2014500723-A/155166: Polycomb-Associated Non-Coding RNAs.
LF347669 - JP 2014500723-A/155172: Polycomb-Associated Non-Coding RNAs.
MA583218 - JP 2018138019-A/155144: Polycomb-Associated Non-Coding RNAs.
MA583220 - JP 2018138019-A/155146: Polycomb-Associated Non-Coding RNAs.
MA583226 - JP 2018138019-A/155152: Polycomb-Associated Non-Coding RNAs.
MA583227 - JP 2018138019-A/155153: Polycomb-Associated Non-Coding RNAs.
MA583231 - JP 2018138019-A/155157: Polycomb-Associated Non-Coding RNAs.
MA583232 - JP 2018138019-A/155158: Polycomb-Associated Non-Coding RNAs.
MA583233 - JP 2018138019-A/155159: Polycomb-Associated Non-Coding RNAs.
MA583236 - JP 2018138019-A/155162: Polycomb-Associated Non-Coding RNAs.
MA583238 - JP 2018138019-A/155164: Polycomb-Associated Non-Coding RNAs.
MA583239 - JP 2018138019-A/155165: Polycomb-Associated Non-Coding RNAs.
MA583240 - JP 2018138019-A/155166: Polycomb-Associated Non-Coding RNAs.
MA583246 - JP 2018138019-A/155172: Polycomb-Associated Non-Coding RNAs.
LF347671 - JP 2014500723-A/155174: Polycomb-Associated Non-Coding RNAs.
JD407282 - Sequence 388306 from Patent EP1572962.
JD075741 - Sequence 56765 from Patent EP1572962.
JD523490 - Sequence 504514 from Patent EP1572962.
LF347672 - JP 2014500723-A/155175: Polycomb-Associated Non-Coding RNAs.
JD227681 - Sequence 208705 from Patent EP1572962.
JD485615 - Sequence 466639 from Patent EP1572962.
JD271292 - Sequence 252316 from Patent EP1572962.
JD458514 - Sequence 439538 from Patent EP1572962.
JD056228 - Sequence 37252 from Patent EP1572962.
JD458513 - Sequence 439537 from Patent EP1572962.
JD056229 - Sequence 37253 from Patent EP1572962.
JD458511 - Sequence 439535 from Patent EP1572962.
JD458512 - Sequence 439536 from Patent EP1572962.
JD271291 - Sequence 252315 from Patent EP1572962.
JD458510 - Sequence 439534 from Patent EP1572962.
JD406055 - Sequence 387079 from Patent EP1572962.
JD406801 - Sequence 387825 from Patent EP1572962.
JD461601 - Sequence 442625 from Patent EP1572962.
JD057274 - Sequence 38298 from Patent EP1572962.
MA583248 - JP 2018138019-A/155174: Polycomb-Associated Non-Coding RNAs.
MA583249 - JP 2018138019-A/155175: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04810 - Regulation of actin cytoskeleton

BioCarta from NCI Cancer Genome Anatomy Project
h_actinYPathway - Y branching of actin filaments

Reactome (by CSHL, EBI, and GO)

Protein Q9Y2A7 (Reactome details) participates in the following event(s):

R-HSA-2029465 WAVE Regulatory Complex (WRC) interacts with RAC1 and PIP3 and gets activated
R-HSA-2029469 p-ERK phosphorylates WAVEs and ABI
R-HSA-2130194 ABL phosphorylates WAVEs
R-HSA-442592 WASPs or WAVEs activate the ARP2/3 complex
R-HSA-2197690 Detachment of WASP/WAVE
R-HSA-2029466 Attachment of preexisting mother filament and initiation of branching
R-HSA-2029482 Regulation of actin dynamics for phagocytic cup formation
R-HSA-4420097 VEGFA-VEGFR2 Pathway
R-HSA-5663213 RHO GTPases Activate WASPs and WAVEs
R-HSA-2029480 Fcgamma receptor (FCGR) dependent phagocytosis
R-HSA-194138 Signaling by VEGF
R-HSA-195258 RHO GTPase Effectors
R-HSA-168249 Innate Immune System
R-HSA-9006934 Signaling by Receptor Tyrosine Kinases
R-HSA-194315 Signaling by Rho GTPases
R-HSA-168256 Immune System
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: HEM2, KIAA0587, NAP1, NM_205842, NP_995314, Q9Y2A7-2, uc002upb.3
UCSC ID: uc002upb.4
RefSeq Accession: NM_205842
Protein: Q9Y2A7-2, splice isoform of Q9Y2A7 CCDS: CCDS2287.1, CCDS2288.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_205842.2
exon count: 32CDS single in 3' UTR: no RNA size: 5015
ORF size: 3405CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 6836.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.