Human Gene CTTNBP2NL (ENST00000271277.11_4) from GENCODE V47lift37
  Description: CTTNBP2 N-terminal like (from RefSeq NM_018704.3)
Gencode Transcript: ENST00000271277.11_4
Gencode Gene: ENSG00000143079.15_11
Transcript (Including UTRs)
   Position: hg19 chr1:112,938,836-113,003,786 Size: 64,951 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg19 chr1:112,958,788-113,000,034 Size: 41,247 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:112,938,836-113,003,786)mRNA (may differ from genome)Protein (639 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIOMIMPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CT2NL_HUMAN
DESCRIPTION: RecName: Full=CTTNBP2 N-terminal-like protein;
INTERACTION: Q5VSL9:FAM40A; NbExp=3; IntAct=EBI-1774273, EBI-1773588; Q9Y3A3:MOB4; NbExp=5; IntAct=EBI-1774273, EBI-713935; Q9P289:MST4; NbExp=3; IntAct=EBI-1774273, EBI-618239; Q9Y6E0:STK24; NbExp=3; IntAct=EBI-1774273, EBI-740175; O43815:STRN; NbExp=3; IntAct=EBI-1774273, EBI-1046642; Q13033:STRN3; NbExp=4; IntAct=EBI-1774273, EBI-1053857;
SEQUENCE CAUTION: Sequence=BAA92671.1; 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


-  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: 8.81 RPKM in Adipose - Subcutaneous
Total median expression: 219.05 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 -50.20192-0.261 Picture PostScript Text
3' UTR -967.103752-0.258 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
IPR019131 - Cortactin-binding_p2_N

Pfam Domains:
PF09727 - Cortactin-binding protein-2

ModBase Predicted Comparative 3D Structure on Q9P2B4
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 DetailsGene Details 
Gene SorterGene Sorter Gene SorterGene Sorter 
 RGDEnsembl WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0051721 protein phosphatase 2A binding

Biological Process:
GO:0006470 protein dephosphorylation
GO:0032410 negative regulation of transporter activity
GO:0034763 negative regulation of transmembrane transport

Cellular Component:
GO:0005737 cytoplasm
GO:0005856 cytoskeleton
GO:0015629 actin cytoskeleton


-  Descriptions from all associated GenBank mRNAs
  LF383827 - JP 2014500723-A/191330: Polycomb-Associated Non-Coding RNAs.
AK023340 - Homo sapiens cDNA FLJ13278 fis, clone OVARC1001051, weakly similar to EPIDERMAL GROWTH FACTOR RECEPTOR SUBSTRATE SUBSTRATE 15.
BC016029 - Homo sapiens CTTNBP2 N-terminal like, mRNA (cDNA clone MGC:16974 IMAGE:3921313), complete cds.
AK022544 - Homo sapiens cDNA FLJ12482 fis, clone NT2RM1001085, highly similar to CTTNBP2 N-terminal-like protein.
AM393552 - Synthetic construct Homo sapiens clone IMAGE:100002599 for hypothetical protein (CTTNBP2NL gene).
AM393771 - Synthetic construct Homo sapiens clone IMAGE:100002598 for hypothetical protein (CTTNBP2NL gene).
AB384205 - Synthetic construct DNA, clone: pF1KSDA1433, Homo sapiens CTTNBP2NL gene for CTTNBP2 N-terminal-like protein, complete cds, without stop codon, in Flexi system.
LF206282 - JP 2014500723-A/13785: Polycomb-Associated Non-Coding RNAs.
MA619404 - JP 2018138019-A/191330: Polycomb-Associated Non-Coding RNAs.
MA441859 - JP 2018138019-A/13785: Polycomb-Associated Non-Coding RNAs.
AK092791 - Homo sapiens cDNA FLJ35472 fis, clone SMINT2007062.
AX747733 - Sequence 1258 from Patent EP1308459.
JD275586 - Sequence 256610 from Patent EP1572962.
LF352959 - JP 2014500723-A/160462: Polycomb-Associated Non-Coding RNAs.
JD491137 - Sequence 472161 from Patent EP1572962.
MA588536 - JP 2018138019-A/160462: Polycomb-Associated Non-Coding RNAs.
LF352954 - JP 2014500723-A/160457: Polycomb-Associated Non-Coding RNAs.
LF352953 - JP 2014500723-A/160456: Polycomb-Associated Non-Coding RNAs.
LF352951 - JP 2014500723-A/160454: Polycomb-Associated Non-Coding RNAs.
LF352949 - JP 2014500723-A/160452: Polycomb-Associated Non-Coding RNAs.
AL359565 - Homo sapiens mRNA; cDNA DKFZp547A023 (from clone DKFZp547A023).
LF352947 - JP 2014500723-A/160450: Polycomb-Associated Non-Coding RNAs.
LF352945 - JP 2014500723-A/160448: Polycomb-Associated Non-Coding RNAs.
JD347916 - Sequence 328940 from Patent EP1572962.
JD411473 - Sequence 392497 from Patent EP1572962.
LF352944 - JP 2014500723-A/160447: Polycomb-Associated Non-Coding RNAs.
JD516563 - Sequence 497587 from Patent EP1572962.
JD506811 - Sequence 487835 from Patent EP1572962.
JD040694 - Sequence 21718 from Patent EP1572962.
JD252695 - Sequence 233719 from Patent EP1572962.
JD501018 - Sequence 482042 from Patent EP1572962.
JD454748 - Sequence 435772 from Patent EP1572962.
JD183121 - Sequence 164145 from Patent EP1572962.
JD145723 - Sequence 126747 from Patent EP1572962.
JD109893 - Sequence 90917 from Patent EP1572962.
JD543315 - Sequence 524339 from Patent EP1572962.
JD478617 - Sequence 459641 from Patent EP1572962.
JD463872 - Sequence 444896 from Patent EP1572962.
JD148359 - Sequence 129383 from Patent EP1572962.
JD249943 - Sequence 230967 from Patent EP1572962.
JD180204 - Sequence 161228 from Patent EP1572962.
JD531735 - Sequence 512759 from Patent EP1572962.
JD355891 - Sequence 336915 from Patent EP1572962.
JD558393 - Sequence 539417 from Patent EP1572962.
JD266061 - Sequence 247085 from Patent EP1572962.
JD344461 - Sequence 325485 from Patent EP1572962.
JD286608 - Sequence 267632 from Patent EP1572962.
JD511458 - Sequence 492482 from Patent EP1572962.
JD319269 - Sequence 300293 from Patent EP1572962.
JD319270 - Sequence 300294 from Patent EP1572962.
JD304320 - Sequence 285344 from Patent EP1572962.
AK055261 - Homo sapiens cDNA FLJ30699 fis, clone FCBBF2000885.
JD049649 - Sequence 30673 from Patent EP1572962.
JD490539 - Sequence 471563 from Patent EP1572962.
JD188938 - Sequence 169962 from Patent EP1572962.
LF352943 - JP 2014500723-A/160446: Polycomb-Associated Non-Coding RNAs.
JD260317 - Sequence 241341 from Patent EP1572962.
JD094893 - Sequence 75917 from Patent EP1572962.
LF352942 - JP 2014500723-A/160445: Polycomb-Associated Non-Coding RNAs.
JD291952 - Sequence 272976 from Patent EP1572962.
JD267221 - Sequence 248245 from Patent EP1572962.
LF352941 - JP 2014500723-A/160444: Polycomb-Associated Non-Coding RNAs.
LF352940 - JP 2014500723-A/160443: Polycomb-Associated Non-Coding RNAs.
MA588531 - JP 2018138019-A/160457: Polycomb-Associated Non-Coding RNAs.
MA588530 - JP 2018138019-A/160456: Polycomb-Associated Non-Coding RNAs.
MA588528 - JP 2018138019-A/160454: Polycomb-Associated Non-Coding RNAs.
MA588526 - JP 2018138019-A/160452: Polycomb-Associated Non-Coding RNAs.
MA588524 - JP 2018138019-A/160450: Polycomb-Associated Non-Coding RNAs.
MA588522 - JP 2018138019-A/160448: Polycomb-Associated Non-Coding RNAs.
MA588521 - JP 2018138019-A/160447: Polycomb-Associated Non-Coding RNAs.
MA588520 - JP 2018138019-A/160446: Polycomb-Associated Non-Coding RNAs.
MA588519 - JP 2018138019-A/160445: Polycomb-Associated Non-Coding RNAs.
MA588518 - JP 2018138019-A/160444: Polycomb-Associated Non-Coding RNAs.
MA588517 - JP 2018138019-A/160443: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: B3KMS5, CT2NL_HUMAN, ENST00000271277.1, ENST00000271277.10, ENST00000271277.2, ENST00000271277.3, ENST00000271277.4, ENST00000271277.5, ENST00000271277.6, ENST00000271277.7, ENST00000271277.8, ENST00000271277.9, KIAA1433, NM_018704, Q96B40, Q9P2B4, uc317ivr.1, uc317ivr.2
UCSC ID: ENST00000271277.11_4
RefSeq Accession: NM_018704.3
Protein: Q9P2B4 (aka CT2NL_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.