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Category Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21

GIFtS
-

CUX1 Gene

protein-coding GIFtS: 57
GCID: GC07P101459

cut-like homeobox 1

(Previous names: cut (Drosophila)-like 1 (CCAAT displacement protein), cut-like...)
(Previous symbol: CUTL1)

Explore 23 diseases affiliated with
CUX1 via

MalaCards

our new
Human Malady Compendium

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc, ⁷Ensembl, ⁸DME, ⁹miRBase, and/or ¹⁰fRNAdb)
About This Section

Aliases
Cut-Like Homeobox 1¹ ²		CUT¹
CDP¹ ² ³ ⁵		Cut (Drosophila)-Like 1 (CCAAT Displacement Protein)¹
CUTL1¹ ² ³ ⁵		Cut-Like 1, CCAAT Displacement Protein (Drosophila)¹
CASP¹ ²		COY1²
CDP/Cut¹ ²		Nbla10317²
CDP1¹ ²		Cut Homolog²
CUX¹ ²		Golgi Integral Membrane Protein 6²
Clox¹ ²		P100¹
Cux/CDP¹ ²		P110¹
GOLIM6¹ ²		P200¹
Homeobox Protein Cux-1² ³		P75¹
CCAAT Displacement Protein² ³		Protein CASP²
CDP/Cux¹		Putative Protein Product Of Nbla10317²

External Ids:	HGNC: 2557¹	Entrez Gene: 1523²	Ensembl: ENSG00000257923⁷	OMIM: 116896⁵	UniProtKB: Q13948³
	UniProtKB: P39880³

Export aliases for CUX1 gene to outside databases

Previous GC identifers: GC07P101247 GC07P096049

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for CUX1:

The protein encoded by this gene is a member of the homeodomain family of DNA binding proteins. It may regulate gene

expression, morphogenesis, and differentiation and it may also play a role in the cell cycle progession. Several

alternatively spliced transcript variants encoding different isoforms have been identified.(provided by RefSeq, Feb

2011)

UniProtKB/Swiss-Prot: CUX1_HUMAN, P39880

Function: Probably has a broad role in mammalian development as a repressor of developmentally regulated gene

expression. May act by preventing binding of positively-activing CCAAT factors to promoters. Component of nf-munr

repressor; binds to the matrix attachment regions (MARs) (5' and 3') of the immunoglobulin heavy chain enhancer.

Represses T-cell receptor (TCR) beta enhancer function by binding to MARbeta, an ATC-rich DNA sequence located

upstream of the TCR beta enhancer (By similarity)

Gene Wiki entry for CUX1 (CUTL1)

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section

RefSeq DNA sequence:

NC_000007.13 NC_018918.1 NT_007933.15 NT_079596.2

Regulatory elements:

SABiosciences Regulatory transcription factor binding sites in the CUX1 gene promoter:
TBP
Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 9): CUX1 promoter sequence

Search SABiosciences Chromatin IP Primers for CUX1

Epigenetics:

QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CUX1

Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 7q22.1 Ensembl cytogenetic band: 7q22.1 HGNC cytogenetic band: 7q22.1

CUX1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CUX1 gene location

GeneLoc information about chromosome 7 GeneLoc Exon Structure

GeneLoc location for GC07P101459: view genomic region (about GC identifiers)

Start:	101,459,219 bp from pter	End:	101,927,250 bp from pter
Size:	468,032 bases	Orientation:	plus strand

1 alternative location:

Chr7+,CRA_TCAG 100,817,679-101,284,708

(According to ¹UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to ²PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: CASP_HUMAN, Q13948 (See protein sequence)

Recommended Name: Protein CASP

Size: 678 amino acids; 77455 Da

Subunit: Homodimer; disulfide-linked. Interacts with GOLGA5

Subcellular location: Golgi apparatus membrane; Single-pass type IV membrane protein

Secondary accessions: B3KWH3 B3KWH8 B4DZZ2 G3V1Z6 J3KPQ6 Q53GU9 Q8TBS3

Alternative splicing: 11 isoforms: Q13948-1 P39880-9 P39880-1 P39880-2 P39880-3 P39880-4 P39880-5 P39880-6

Q13948-2 Q13948-9 Q13948-10 (No experimental confirmation available)

UniProtKB/Swiss-Prot: CUX1_HUMAN, P39880 (See protein sequence)

Recommended Name: Homeobox protein cut-like 1

Size: 1505 amino acids; 164187 Da

Subunit: Interacts with BANP (By similarity)

Subcellular location: Nucleus

Miscellaneous: Asn-1290 may participate in regulating DNA-binding activity by promoting homo- and heterodimerization

Secondary accessions: B3KV79 J3KQV9 Q6NYH4 Q75LE5 Q75MT2 Q75MT3 Q86UJ7 Q9UEV5

Alternative splicing: 11 isoforms: P39880-1 P39880-2 P39880-3 P39880-4 P39880-5 P39880-6 P39880-9 Q13948-1

Q13948-2 Q13948-9 Q13948-10 (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for CUX1: NX_P39880

Post-translational modifications:

View modification sites using PhosphoSitePlus²

View neXtProt modification sites for NX_P39880

CUX1 Protein expression data from MOPED and PaxDb: About this image

REFSEQ proteins (7 alternative transcripts):

NP_001189472.1 NP_001189473.1 NP_001189474.1 NP_001189475.1 NP_001904.2 NP_852477.1 NP_853530.2

ENSEMBL proteins:

ENSP00000414091 ENSP00000292538 ENSP00000377410 ENSP00000449371 ENSP00000353401

ENSP00000409745 ENSP00000292535 ENSP00000446630 ENSP00000447373 ENSP00000450125

ENSP00000451558 ENSP00000453533 ENSP00000453088 ENSP00000453648

Reactome Protein details: P39880
Human Recombinant Protein Products:

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	GenScript Custom Purified and Recombinant Proteins Services for CUX1
	Novus Biologicals CUX1 Proteins Novus Biologicals CUX1 Lysates
	Browse Sino Biological Recombinant Proteins
	Browse ProSpec Recombinant Proteins
	Uscn Proteins for CUX1

Gene Ontology (GO): 5/6 cellular component terms (GO ID links to tree view) (see all 6): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0000139	Golgi membrane	IEA	--
GO:0005634	nucleus	IDA	--
GO:0005730	NOT nucleolus	IDA	--
GO:0005737	cytoplasm	IDA	--
GO:0005829	cytosol	TAS	--

CUX1 for ontologies About GeneDecksing

CUX1 Antibody Products:

	Browse EMD Millipore's Extensive Line of Mono- and Polyclonal Antibodies
	R&D Systems Antibodies for CUX1 (CDP/CUTL1)
	Browse OriGene Antibodies OriGene Custom Antibody Services for CUX1
	GenScript Custom Superior Antibodies Services for CUX1
	Novus Biologicals CUX1 Antibodies
	Search for Antibodies for CUX1 at Abcam
	Uscn Antibodies for CUX1
	ThermoFisher Antibodies for CUX1

Assay Products for CUX1:

	Browse Kits and Assays available from EMD Millipore
	OriGene Custom Immunoassay Development Browse OriGene Fluorogenic Cell Assay Kits
	Browse R&D Systems for biochemical assays
	GenScript Custom Assay Services for CUX1
	Browse Enzo Life Sciences for kits & assays
	Uscn ELISAs and CLIAs for CUX1

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

CUX1 for domains About GeneDecksing

5/6 InterPro domains/families (see all 6):

IPR012955 CASP_C

IPR010982 Lambda_DNA-bd_dom

IPR003350 Hmoeo_CUT

IPR017970 Homeobox_CS

IPR001356 Homeodomain

Graphical View of Domain Structure for InterPro Entry Q13948

Graphical View of Domain Structure for InterPro Entry P39880

ProtoNet protein and cluster: Q13948

1 Blocks protein family: IPB012955 CASP

UniProtKB/Swiss-Prot: CASP_HUMAN, Q13948

Similarity: Belongs to the CASP family

UniProtKB/Swiss-Prot: CUX1_HUMAN, P39880

Similarity: Belongs to the CUT homeobox family

Similarity: Contains 3 CUT DNA-binding domains

Similarity: Contains 1 homeobox DNA-binding domain

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
About This Section

Function Summary:

UniProtKB/Swiss-Prot: CASP_HUMAN, Q13948

Function: May be involved in intra-Golgi retrograde transport

UniProtKB/Swiss-Prot: CUX1_HUMAN, P39880

Function: Probably has a broad role in mammalian development as a repressor of developmentally regulated gene

expression. May act by preventing binding of positively-activing CCAAT factors to promoters. Component of nf-munr

repressor; binds to the matrix attachment regions (MARs) (5' and 3') of the immunoglobulin heavy chain enhancer.

Represses T-cell receptor (TCR) beta enhancer function by binding to MARbeta, an ATC-rich DNA sequence located

upstream of the TCR beta enhancer (By similarity)

		10/1948 SABiosciences Target genes for CUX1 (see all 1948):
		AAA1 AACS ABCC4 ABCC5 ABCG5 ABHD1 ABHD12B ABLIM2 ABO ABTB2

miRNA Products:		miRTarBase miRNAs that target CUX1: hsa-mir-155 (MIRT004087)

		OriGene 3'-UTR Clone (see all 3): CUX1 Browse MicroRNA Expression Plasmids
		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat CUX1
		8/303 QIAGEN miScript miRNA Assays for microRNAs that regulate CUX1 (see all 303):
		hsa-miR-579 hsa-miR-26a-2* hsa-miR-520f hsa-miR-146a hsa-miR-1260b hsa-miR-605 hsa-miR-4275 hsa-miR-502-3p

		SwitchGear 3'UTR luciferase reporter plasmid: CUX1 3' UTR sequence

Inhib. RNA Products:		Browse for Gene Knock-down Tools from EMD Millipore
		OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for CUX1 OriGene shRNA RFP: CUX1 OriGene siRNA: CUX1
		QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat CUX1

Gene Editing
Products:

DNA2.0 Custom Protein Engineering Service for CUX1

Clone Products:		Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
		OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for CUX1 (see all 5) OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for CUX1 (see all 3) OriGene custom cloning services � gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
		GenScript: all cDNA clones in your preferred vector (see all 7): CUX1 (NM_181552)
		Browse Sino Biological Human cDNA Clones
		DNA2.0 Custom Codon Optimized Gene Synthesis Service for CUX1
		Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CUX1

Cell Line Products:		GenScript Custom overexpressing Cell Line Services for CUX1
		Search LifeMap BioReagents cell lines for CUX1

In Situ Assay
Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CUX1

Gene Ontology (GO): 5 molecular function terms (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0003677	DNA binding	--	--
GO:0003682	chromatin binding	IEA	--
GO:0003700	sequence-specific DNA binding transcription factor activity	IEA	--
GO:0030674	protein binding, bridging	IEA	--
GO:0043565	sequence-specific DNA binding	IEA	--

CUX1 for ontologies About GeneDecksing

2 GenomeRNAi human phenotypes for CUX1:

Synthetic lethal with Ras

Synthetic lethal with imatinib

Animal Models:
Mouse knock-outs for CUX1: Cux1^tm1Ejn Cux1^tm1Rhsc Cux1^tm2Ejn
15 MGI mutant phenotypes (inferred from 4 alleles) (MGI details for Cux1):

adipose tissue	behavior/neurological	cellular	growth/size	hematopoietic system
homeostasis/metabolism	immune system	integument	mortality/aging	nervous system
pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton

CUX1 for phenotypes About GeneDecksing

(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to ¹UniProtKB, ²MINT, ³I2D, and/or ⁴STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
About This Section

Unified GeneCards pathways About this table

See pathways by source

Super-pathway

contained gene-specific pathways

Signaling by FGFR1 mutants

	Signaling by FGFR1 mutants	1.00			Signaling by FGFR1 fusion mutants	0.63
	Signaling by FGFR mutants	0.67			FGFR1 fusion proteins recruit PIK3R1	0.37

Integrated Pancreatic Cancer Pathway

Integrated Pancreatic Cancer Pathway

1.00

Integrated Pancreatic Cancer Pathway

0.99

Disease

Disease

1.00

Signaling by FGFR

Signaling by FGFR in disease

0.91

Pathway sources
See GeneCards unified pathways
Show all pathways

2 BioSystems Pathways for CUX1

	Integrated Pancreatic Cancer Pathway
	Integrated Pancreatic Cancer Pathway

5/6 Reactome Pathways for CUX1 (see all 6)

	Signaling by FGFR mutants
	Signaling by FGFR1 fusion mutants
	Signaling by FGFR in disease
	Signaling by FGFR1 mutants
	Disease

CUX1 for pathways About GeneDecksing

Interactions:

SABiosciences Gene Network Central^TM Interacting Genes and Proteins Network for CUX1

STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

5/48 Interacting proteins for CUX1 (P39880^{2, 3} ENSP00000292535⁴) via UniProtKB, MINT, STRING, and/or I2D (see all 48)

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
RB1	P06400², ENSP00000267163⁴	MINT-13923 MINT-13924 MINT-13926 MINT-13925 STRING: ENSP00000267163
RECQL5	O94762², ENSP00000317636⁴	MINT-64665 STRING: ENSP00000317636
BIN1	O00499², ENSP00000316779⁴	MINT-64663 STRING: ENSP00000316779
CA12	O43570², ENSP00000178638⁴	MINT-64664 STRING: ENSP00000178638
ELAC2	Q9BQ52²	MINT-64666

About this table

Gene Ontology (GO): 5/8 biological process terms (GO ID links to tree view) (see all 8): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0000122	negative regulation of transcription from RNA polymerase II promoter	IEA	--
GO:0000301	retrograde transport, vesicle recycling within Golgi	IEA	--
GO:0006351	transcription, DNA-dependent	IEA	--
GO:0006357	regulation of transcription from RNA polymerase II promoter	TAS	1301999
GO:0006891	intra-Golgi vesicle-mediated transport	IEA	--

CUX1 for ontologies About GeneDecksing

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section

CUX1 for compounds About GeneDecksing

Browse Small Molecules at EMD Millipore

Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for CUX1
2 Novoseek chemical compound relationships for CUX1 gene About this table

Compound	-log (P-Val)	Hits	PubMed IDs for Articles with Shared Sentences (# sentences)
oligonucleotide	3.03	2	9874597 (1), 9886051 (1)
lysine	0	1	15269344 (1)

Search CenterWatch for drugs/clinical trials and news about CUX1

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

REFSEQ mRNAs for CUX1 gene (7 alternative transcripts):

NM_001202543.1 NM_001202544.1 NM_001202545.1 NM_001202546.1 NM_001913.3 NM_181500.2 NM_181552.3

Unigene Cluster for CUX1:

Cut-like homeobox 1

Hs.191482 [show with all ESTs]

Unigene Representative Sequence: NM_001202543

18 Ensembl transcripts including schematic representations, and UCSC links where relevant:

ENST00000437600(uc003uyt.3 uc003uyu.3 uc011kkn.2 uc003uyw.3 uc003uyv.3)

ENST00000497815 ENST00000292538 ENST00000393824 ENST00000547394 ENST00000360264(uc003uys.4)

ENST00000425244 ENST00000292535(uc003uyx.4) ENST00000549414 ENST00000550008

ENST00000546411 ENST00000556210 ENST00000558469 ENST00000560541 ENST00000558836

ENST00000465461 ENST00000485792 ENST00000487284

miRNA Products:		OriGene 3'-UTR Clone (see all 3): CUX1 Browse OriGene MicroRNA Expression Plasmids
		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat CUX1
		8/303 QIAGEN miScript miRNA Assays for microRNAs that regulate CUX1 (see all 303):
		hsa-miR-579 hsa-miR-26a-2* hsa-miR-520f hsa-miR-146a hsa-miR-1260b hsa-miR-605 hsa-miR-4275 hsa-miR-502-3p

		SwitchGear 3'UTR luciferase reporter plasmid: CUX1 3' UTR sequence

Inhib. RNA Products:		Browse for Gene Knock-down Tools from EMD Millipore
		OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for CUX1 OriGene shRNA RFP: CUX1 OriGene siRNA: CUX1
		QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat CUX1

Clone Products:		OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for CUX1 (see all 5) OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for CUX1 (see all 3) OriGene custom cloning services � gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
		GenScript: all cDNA clones in your preferred vector (see all 7): CUX1 (NM_181552)
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		Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CUX1

Primer Products:		OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for CUX1 Browse OriGene validated miRNA SYBR primer pairs
		SABiosciences RT² qPCR Primer Assay in human, mouse, rat CUX1
		QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat CUX1
		QIAGEN QuantiFast Probe-based Assays in human, mouse, rat CUX1

Additional cDNA sequence:

AB075522.1 AK056307.1 AK122726.1 AK125097.1 AK222832.1 AK303151.1 BC007204.1 BC012323.1

BC025422.2 BC040199.1 BC045562.1 BC066592.1 CR627481.1 L12579.1 M74099.1

24/37 DOTS entries (see all 37):

DT.116333 DT.95220586 DT.100721744 DT.437458 DT.91869554 DT.453428 DT.121072815 DT.95319402

DT.100826575 DT.70100048 DT.121072790 DT.100689588 DT.121072573 DT.91903819 DT.121072722 DT.75199992

DT.97846611 DT.121072897 DT.40235691 DT.100826571 DT.100697426 DT.92441581 DT.92441587 DT.100000033

24/274 AceView cDNA sequences (see all 274):

BM791595 BM693569 BM464736 BE349900 BF902014 BF772633 BI761718 BU753613

F05549 CA440054 AU076945 CB153655 AW664187 BE740869 AA947233 F01819

BQ940815 AL041536 AI453757 AA434500 CD676183 BQ018215 BF797739 BM790177

GeneLoc Exon Structure

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

CUX1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: GATTGGTCTG

About this image

CUX1 expression in embryonic tissues and stem cells

Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine About this table

4 LifeMap In Vivo Development Anatomical Compartments/Cells

Tissue

Anatomical Compartment

Cell

Category (developmental path)

Limb

Autopod Synovial Joint

Interzone Cells

Cartilage

Limb

Stylopod Synovial Joint

Interzone Cells

Cartilage

Limb

Zeugopod Synovial Joint

Cartilage

Kidney

Expression:

Positive

Negative

Selective marker

Experimental details:

Curated

Microarrays

In-situ hybridization

See CUX1 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for CUX1

SOURCE GeneReport for Unigene cluster: Hs.191482

SABiosciences Expression via Pathway-Focused PCR Array including CUX1:

Homeobox (HOX) Genes in human mouse rat

Primer Products:		OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for CUX1 Browse OriGene validated miRNA SYBR primer pairs
		SABiosciences RT² qPCR Primer Assay in human, mouse, rat CUX1
		QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat CUX1
		QIAGEN QuantiFast Probe-based Assays in human, mouse, rat CUX1

In Situ
Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CUX1

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD , ⁵MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or ⁶Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
About This Section

This gene was present in the common ancestor of eukaryotes.

Orthologs for CUX1 gene from 6/24 species (see all 24) About this table

Organism	Taxonomic classification	Gene	Description	Human Similarity	Orthology Type	Details
chicken (Gallus gallus)	Aves	CUX1¹	cut-like homeobox 1	80.98(n) 86.22(a)		396358 XM_425393.2 XP_425393.2
lizard (Anolis carolinensis)	Reptilia	CUX1⁶	--	77(a)	1 ↔ 1	GL343613.1(42830-116926)
zebrafish (Danio rerio)	Actinopterygii	idibd1033²	idibd1033	77.08(n)		338139 BG985437.1
worm (Caenorhabditis elegans)	Secernentea	ceh-44¹	Protein CEH-44	39.12(n) 24.04(a)		175372 NM_065175.4 NP_497576.1
thale cress (Arabidopsis thaliana)	eudicotyledons	AtCASP⁶	protein CASP	20(a)	1 → many	3(6336736-6341788)
rice (Oryza sativa)	Liliopsida	--	CASP, putative, expressed	23(a)	1 → many	3(28664349-28672103)

ENSEMBL Gene Tree for CUX1 (if available)
TreeFam Gene Tree for CUX1 (if available)

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68)
About This Section

Paralogs for CUX1 gene

CUX2² ONECUT1² ONECUT2² ONECUT3²

3 SIMAP similar genes for CUX1 using alignment to 5 protein entries: CASP_HUMAN (see all proteins):

CUTL1 Nbla10317 CUX2

CUX1 for paralogs About GeneDecksing

(SNPs/Variants according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
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SNP ID	Valid	Clinical significance	Chr 7 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
Genomic Data					Transcription Related Data				Allele Frequencies
				--	--	--		--	--
rs67064323^1,2	C	--	96060835(+)	`TGTGCG/-CTCTT`	7	--	int¹		1		NA	2
rs2906656^1,2	C,F,A,H,	--	96149814(+)	`CTGCCC/TCTAAA`	7	--	int¹		14		NS EA NA WA	1964
rs202163^1,2	H,	--	96223231(-)	`AATACA/C/TTATCT`	7	--	int¹		5		MN NS EA	598
rs2091778^1,2	A,	--	96230809(-)	`AGGCTA/GTGATG`	7	--	int¹		0	--	--	--	--
rs202146^1,2	H	--	96239552(+)	`GTTCAT/CTCTCA`	7	--	int¹		4		NS EA	418
rs370330^1,2		--	96248330(+)	`tcaagA/C/Tgatcc`	7	--	int¹		1		WA	118
rs2707007^1,2	C	--	96248601(-)	`ACCACC/TACACT`	7	--	int¹		1		NA	2
rs2685771^1,2	C	--	96248628(+)	`CACCCG/ACCACT`	7	--	int¹		1		NA	2
rs2685772^1,2	C	--	96248657(+)	`CACAGC/TAGCCT`	7	--	int¹		1		NA	2
rs1638845^1,2	C,	--	96249191(-)	`GGAGGG/TGTGAC`	7	--	int¹		1		NA	2

HapMap Linkage Disequilibrium report for CUX1 (101459219 - 101709219 bp, first 250kb of CUX1)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 8 variations for CUX1
6 CNVs: 0107 82120 3693 64909 64908 31383
2 Indels: 94758 94757

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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CUX1 for disorders           About GeneDecksing

OMIM gene information: 116896    OMIM disorders: --

20/23 diseases for CUX1 (see all 23):    About MalaCards

hereditary persistence of fetal hemoglobin vaginal discharge norrie disease polycystic kidney disease

inflammatory bowel disease leiomyoma myeloid leukemia kidney disease

vaginitis cystic fibrosis lymphoblastic leukemia epididymitis

hepatitis b breast cancer lung adenocarcinoma fibrosis

leukemia retinoblastoma pancreatic cancer adenocarcinoma

9 Novoseek disease relationships for CUX1 gene About this table

Disease	-log (P-Val)	Hits	PubMed IDs for Articles with Shared Sentences (# sentences)
uterine leiomyoma	49.6	7	9178912 (3), 9591780 (2), 12766905 (1)
leiomyoma	32.7	2	9591780 (1), 10208423 (1)
mammary tumor	29.6	6	9591780 (2), 17018605 (1), 10208423 (1)
myeloid leukemia	24.9	4	7759529 (1), 17018605 (1)
tumors	12.4	31	9178912 (3), 11169958 (3), 17369846 (3), 15950902 (2) (see all 13)
breast cancer	1.56	5	10208423 (2), 12438259 (1), 15950902 (1), 17018605 (1)
cancer	1.2	6	16357536 (2), 15950902 (1), 18787218 (1), 11403998 (1) (see all 5)
ovarian cancer	0	1	11169958 (1)
carcinoma	0	1	15950902 (1)

Human Genome Epidemiology (HuGE) Navigator: CUX1 (3 documents)

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(in PubMed. Associations of this gene to articles via ¹Entrez Gene, ²UniProtKB/Swiss-Prot, ³HGNC, ⁴GAD, ⁵PharmGKB, ⁶HMDB, ⁷DrugBank, ⁸UniProtKB/TrEMBL, ⁹ Novoseek, and/or ¹⁰fRNAdb)
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PubMed articles for CUX1 gene, integrated from 9 sources (see all 155):
(articles sorted by number of sources associating them with CUX1)

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Large-scale sequencing of two regions in human chromosome 7q22: analysis of 650 kb of genomic sequence around the EPO and CUTL1 loci reveals 17 genes. (PubMed id 9799793)^{1, 2, 3, 9} Gloeckner G.... Rosenthal A. (1998)
Human CCAAT displacement protein is homologous to the Drosophila homeoprotein, cut. (PubMed id 1301999)^{1, 2, 9} Neufeld E.J.... Orkin S.H. (1992)
Exon/intron structure and alternative transcripts of the CUTL1 gene. (PubMed id 10607901)^{1, 2, 9} Rong Zeng W.... Nepveu A. (2000)
Regional localization of the CCAAT displacement protein gene (CUTL1) to 7q22 by analysis of somatic cell hybrids. (PubMed id 8468066)^{1, 3, 9} Scherer S.W....Tsui L.C. (1993)
The COG and COPI complexes interact to control the abundance of GEARs, a subset of Golgi integral membrane proteins. (PubMed id 15004235)^{1, 3, 9} Oka T....Krieger M. (2004)
Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)^{1, 2} Ota T.... Sugano S. (2004)
The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)^{1, 2} Gerhard D.S....Malek J. (2004)
The DNA sequence of human chromosome 7. (PubMed id 12853948)^{1, 2} Hillier L.W.... Wilson R.K. (2003)
CASP, a novel, highly conserved alternative-splicing product of the CDP/cut/cux gene, lacks cut-repeat and homeo DNA-binding domains, and interacts with full-length CDP in vitro. (PubMed id 9332351)^{1, 9} Lievens P.M.-J.... Neufeld E.J. (1997)
CDP/Cux stimulates transcription from the DNA polymerase alpha gene promoter. (PubMed id 12665598)^{1, 9} Truscott M....Nepveu A. (2003)

(in PubMed, OMIM, and NCBI Bookshelf)
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		AND	OR
Aliases
Disorders
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(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 1523	HGNC: 2557	AceView: CUTL1	Ensembl:ENSG00000257923	euGenes: HUgn1523
ECgene: CUX1	H-InvDB: CUX1

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
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Name	Description
PharmGKB entry for CUX1	Pharmacogenomics, SNPs, Pathways

Intellectual Property for CUX1 gene
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Patent Information for CUX1 gene:
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GeneCards and IP:
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CUX1 Gene

cut-like homeobox 1

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CUX1 (Gene Symbol)
Cut-Like Homeobox 1
CDP
CUTL1
CASP
CDP/Cut
CDP1
CUX
Clox
Cux/CDP
GOLIM6
Homeobox Protein Cux-1
CCAAT Displacement Protein
CDP/Cux
CUT
Cut (Drosophila)-Like 1 (CCAAT Displacement Protein)
Cut-Like 1, CCAAT Displacement Protein (Drosophila)
COY1
Nbla10317
Cut Homolog
Golgi Integral Membrane Protein 6
P100
P110
P200
P75
Protein CASP
Putative Protein Product Of Nbla10317

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CUX1 Gene

cut-like homeobox 1

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