Human Gene NOTCH2NLC (uc001emn.4)
  Description: Homo sapiens notch 2 N-terminal like (NOTCH2NLC), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:145,209,111-145,285,912 Size: 76,802 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr1:145,248,857-145,282,031 Size: 33,175 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:145,209,111-145,285,912)mRNA (may differ from genome)Protein (236 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblEntrez GeneExonPrimerGeneCardsGeneNetworkH-INV
HPRDLynxMGIneXtProtOMIMPubMed
TreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: NT2NL_HUMAN
DESCRIPTION: RecName: Full=Notch homolog 2 N-terminal-like protein;
FUNCTION: May function in the Notch signaling pathway and regulate neutrophil differentiation.
SUBUNIT: Interacts with ELANE.
SUBCELLULAR LOCATION: Secreted. Cytoplasm.
TISSUE SPECIFICITY: Widely expressed with higher levels in leukocytes and lymph nodes.
PTM: Cleaved by ELANE.
SIMILARITY: Belongs to the NOTCH family.
SIMILARITY: Contains 6 EGF-like domains.
SEQUENCE CAUTION: Sequence=AAH84572.1; Type=Erroneous initiation; Sequence=BAC11381.1; Type=Erroneous initiation;

-  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


+  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: 4.68 RPKM in Testis
Total median expression: 79.70 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 -185.20370-0.501 Picture PostScript Text
3' UTR -1038.093881-0.267 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
IPR000742 - EG-like_dom
IPR001881 - EGF-like_Ca-bd
IPR013032 - EGF-like_CS
IPR000152 - EGF-type_Asp/Asn_hydroxyl_site
IPR018097 - EGF_Ca-bd_CS

Pfam Domains:
PF00008 - EGF-like domain
PF07645 - Calcium-binding EGF domain
PF12661 - Human growth factor-like EGF

SCOP Domains:
57196 - EGF/Laminin

ModBase Predicted Comparative 3D Structure on Q7Z3S9
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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    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005509 calcium ion binding
GO:0005515 protein binding

Biological Process:
GO:0007219 Notch signaling pathway
GO:0007275 multicellular organism development
GO:0030154 cell differentiation

Cellular Component:
GO:0005576 extracellular region
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AK098372 - Homo sapiens cDNA FLJ25506 fis, clone CBR05185.
AK092351 - Homo sapiens cDNA FLJ35032 fis, clone OCBBF2016038.
AX747492 - Sequence 1017 from Patent EP1308459.
BC010154 - Homo sapiens Notch homolog 2 (Drosophila) N-terminal like, mRNA (cDNA clone MGC:19605 IMAGE:3623163), complete cds.
AK075065 - Homo sapiens cDNA FLJ90584 fis, clone PLACE1000740, highly similar to Neurogenic locus notch homolog protein 2 precursor.
BC090943 - Homo sapiens Notch homolog 2 (Drosophila) N-terminal like, mRNA (cDNA clone MGC:105043 IMAGE:5404327), complete cds.
BC019835 - Homo sapiens Notch homolog 2 (Drosophila) N-terminal like, mRNA (cDNA clone IMAGE:4155767), complete cds.
BC065219 - Homo sapiens Notch homolog 2 (Drosophila) N-terminal like, mRNA (cDNA clone MGC:74525 IMAGE:5724338), complete cds.
AK293876 - Homo sapiens cDNA FLJ55807 complete cds, highly similar to Neurogenic locus notch homolog protein 2 precursor.
BC084572 - Homo sapiens Notch homolog 2 (Drosophila) N-terminal like, mRNA (cDNA clone IMAGE:6376831), partial cds.
BX537434 - Homo sapiens mRNA; cDNA DKFZp686B1695 (from clone DKFZp686B1695); complete cds.
MH721899 - Homo sapiens NOTCH2NLB_1 (NOTCH2NLB) mRNA, complete sequence.
MH721895 - Homo sapiens NOTCH2NLA_1 (NOTCH2NLA) mRNA, complete sequence.
MH721896 - Homo sapiens NOTCH2NLA_2 (NOTCH2NLA) mRNA, complete sequence.
MH721897 - Homo sapiens NOTCH2NLA_3 (NOTCH2NLA) mRNA, complete sequence.
MH721898 - Homo sapiens NOTCH2NLA_4 (NOTCH2NLA) mRNA, complete sequence.
MH721901 - Homo sapiens NOTCH2NLD_1 (NOTCH2NLD) mRNA, complete sequence.
MH721902 - Homo sapiens NOTCH2NLD_2 (NOTCH2NLD) mRNA, complete sequence.
MH721900 - Homo sapiens NOTCH2NLC_2 (NOTCH2NLC) mRNA, complete sequence.
JD443842 - Sequence 424866 from Patent EP1572962.
JD436724 - Sequence 417748 from Patent EP1572962.
JD274087 - Sequence 255111 from Patent EP1572962.
JC506661 - Sequence 29 from Patent EP2733220.
JC506666 - Sequence 34 from Patent EP2733220.
JC737773 - Sequence 29 from Patent WO2014075939.
JC737778 - Sequence 34 from Patent WO2014075939.
JC506674 - Sequence 42 from Patent EP2733220.
JC737786 - Sequence 42 from Patent WO2014075939.
JC506671 - Sequence 39 from Patent EP2733220.
JC737783 - Sequence 39 from Patent WO2014075939.
JC506688 - Sequence 56 from Patent EP2733220.
JC737800 - Sequence 56 from Patent WO2014075939.
EU831948 - Synthetic construct Homo sapiens clone HAIB:100066977; DKFZo008E0123 Notch homolog 2 (Drosophila) N-terminal like protein (NOTCH2NL) gene, encodes complete protein.
KJ896196 - Synthetic construct Homo sapiens clone ccsbBroadEn_05590 NOTCH2NL gene, encodes complete protein.
KJ906495 - Synthetic construct Homo sapiens clone ccsbBroadEn_16165 NOTCH2NL gene, encodes complete protein.
JF432636 - Synthetic construct Homo sapiens clone IMAGE:100073873 Notch homolog 2 (Drosophila) N-terminal like (NOTCH2NL) gene, encodes complete protein.
DQ576796 - Homo sapiens piRNA piR-44908, complete sequence.
DQ584202 - Homo sapiens piRNA piR-51314, complete sequence.
DQ579629 - Homo sapiens piRNA piR-47741, complete sequence.
DQ601193 - Homo sapiens piRNA piR-39259, complete sequence.

-  Other Names for This Gene
  Alternate Gene Symbols: N2N, NM_203458, NOTCH2NL, NP_982283, NT2NL_HUMAN, Q5BKT8, Q5VTG9, Q5XG84, Q6P192, Q7Z3S9, Q8NC23, Q8WUQ9, Q96FY1
UCSC ID: uc001emn.4
RefSeq Accession: NM_203458
Protein: Q7Z3S9 (aka NT2NL_HUMAN)

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_203458.3
exon count: 5CDS single in 3' UTR: no RNA size: 4962
ORF size: 711CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1503.50frame 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.