Human Gene NAP1L4 (uc001lxc.3)
  Description: Homo sapiens nucleosome assembly protein 1-like 4 (NAP1L4), mRNA.
RefSeq Summary (NM_005969): This gene encodes a member of the nucleosome assembly protein (NAP) family which can interact with both core and linker histones. It can shuttle between the cytoplasm and nucleus, suggesting a role as a histone chaperone. This gene is one of several located near the imprinted gene domain of 11p15.5, an important tumor-suppressor gene region. Alterations in this region have been associated with the Beckwith-Wiedemann syndrome, Wilms tumor, rhabdomyosarcoma, adrenocortical carcinoma, and lung, ovarian, and breast cancer. [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg19 chr11:2,965,660-3,013,607 Size: 47,948 Total Exon Count: 16 Strand: -
Coding Region
   Position: hg19 chr11:2,970,489-3,000,450 Size: 29,962 Coding Exon Count: 14 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:2,965,660-3,013,607)mRNA (may differ from genome)Protein (375 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMalacardsMGI
neXtProtOMIMPubMedTreefamUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: NP1L4_HUMAN
DESCRIPTION: RecName: Full=Nucleosome assembly protein 1-like 4; AltName: Full=Nucleosome assembly protein 2; Short=NAP-2;
INTERACTION: P04608:tat (xeno); NbExp=3; IntAct=EBI-2255116, EBI-6164389;
SUBCELLULAR LOCATION: Nucleus.
TISSUE SPECIFICITY: Ubiquitous. Biallelically expressed in fetal and adult tissues. Highest levels in testis.
PTM: Polyglutamylated by TTLL4, a modification that occurs exclusively on glutamate residues and results in polyglutamate chains on the gamma-carboxyl group. Some residues may also be monoglycylated but not polyglycylated due to the absence of functional TTLL10 in human (By similarity).
SIMILARITY: Belongs to the nucleosome assembly protein (NAP) 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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): NAP1L4
CDC HuGE Published Literature: NAP1L4
Positive Disease Associations: Alcoholism
Related Studies:
  1. Alcoholism
    , , . [PubMed 0]

-  MalaCards Disease Associations
  MalaCards Gene Search: NAP1L4
Diseases sorted by gene-association score: beckwith-wiedemann syndrome (10), wilms tumor susceptibility-5 (3), antenatal bartter syndrome (2)

-  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: 69.49 RPKM in Testis
Total median expression: 1779.98 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 -57.60141-0.409 Picture PostScript Text
3' UTR -499.461249-0.400 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
IPR002164 - NAP_family

Pfam Domains:
PF00956 - Nucleosome assembly protein (NAP)

ModBase Predicted Comparative 3D Structure on Q99733
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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 Details    
 Gene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0031491 nucleosome binding
GO:0051082 unfolded protein binding

Biological Process:
GO:0006334 nucleosome assembly

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  BC022090 - Homo sapiens nucleosome assembly protein 1-like 4, mRNA (cDNA clone MGC:4565 IMAGE:3029455), complete cds.
U77456 - Human nucleosome assembly protein 2 mRNA, complete cds.
AK095320 - Homo sapiens cDNA FLJ38001 fis, clone CTONG2012077.
AK093928 - Homo sapiens cDNA FLJ36609 fis, clone TRACH2015939.
AX748368 - Sequence 1893 from Patent EP1308459.
JD164616 - Sequence 145640 from Patent EP1572962.
JD189342 - Sequence 170366 from Patent EP1572962.
JD129750 - Sequence 110774 from Patent EP1572962.
JD024322 - Sequence 5346 from Patent EP1572962.
JD031369 - Sequence 12393 from Patent EP1572962.
AK311098 - Homo sapiens cDNA, FLJ18140.
JD050891 - Sequence 31915 from Patent EP1572962.
JD351243 - Sequence 332267 from Patent EP1572962.
AK316548 - Homo sapiens cDNA, FLJ79447 complete cds, highly similar to Nucleosome assembly protein 1-like 4.
JD273335 - Sequence 254359 from Patent EP1572962.
JD327091 - Sequence 308115 from Patent EP1572962.
JD427497 - Sequence 408521 from Patent EP1572962.
AK316242 - Homo sapiens cDNA, FLJ79141 complete cds, highly similar to Nucleosome assembly protein 1-like 4.
JD195584 - Sequence 176608 from Patent EP1572962.
AK316324 - Homo sapiens cDNA, FLJ79223 complete cds, highly similar to Nucleosome assembly protein 1-like 4.
JD451885 - Sequence 432909 from Patent EP1572962.
AK299515 - Homo sapiens cDNA FLJ59403 complete cds, highly similar to Nucleosome assembly protein 1-like 4.
JD224259 - Sequence 205283 from Patent EP1572962.
AB362575 - Homo sapiens NAP1L4 mRNA for nucleosome assembly protein 1-like 4, partial cds, splicing variant 1.
AB500094 - Homo sapiens NAP1L4b mRNA for nucleosome assembly protein 1-like 4b, complete cds.
EU176389 - Synthetic construct Homo sapiens clone IMAGE:100006488; FLH189762.01X; RZPDo839A02252D nucleosome assembly protein 1-like 4 (NAP1L4) gene, encodes complete protein.
EU176734 - Synthetic construct Homo sapiens clone IMAGE:100011514; FLH189758.01L; RZPDo839D09255D nucleosome assembly protein 1-like 4 (NAP1L4) gene, encodes complete protein.
AK312599 - Homo sapiens cDNA, FLJ92975, highly similar to Homo sapiens nucleosome assembly protein 1-like 4 (NAP1L4), mRNA.
AK056828 - Homo sapiens cDNA FLJ32266 fis, clone PROST1000419.

-  Other Names for This Gene
  Alternate Gene Symbols: NAP2, NM_005969, NP1L4_HUMAN, NP_005960, Q99733
UCSC ID: uc001lxc.3
RefSeq Accession: NM_005969
Protein: Q99733 (aka NP1L4_HUMAN or N1L4_HUMAN)
CCDS: CCDS41599.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_005969.3
exon count: 16CDS single in 3' UTR: no RNA size: 2564
ORF size: 1128CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2318.00frame shift in genome: no % Coverage: 98.21
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.