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Cux2 cut-like homeobox 2 [ Mus musculus (house mouse) ]

Gene ID: 13048, updated on 11-Apr-2024

Summary

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Official Symbol
Cux2provided by MGI
Official Full Name
cut-like homeobox 2provided by MGI
Primary source
MGI:MGI:107321
See related
Ensembl:ENSMUSG00000042589 AllianceGenome:MGI:107321
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Cutl2; Cux-2; 1700051K22Rik
Summary
This gene is a member of the Cut family of transcription factors that have multiple DNA binding domains and regulate cell proliferation and differentiation. This gene is primarily expressed in nervous tissues where it controls the proliferation of neuronal precursors, and may play a role in organogenesis earlier during embryonic development. Mice lacking the encoded protein exhibit smaller spinal cords with deficits in neural progenitor development as well as in neuroblast and interneuron differentiation. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Aug 2015]
Expression
Biased expression in cortex adult (RPKM 10.2), frontal lobe adult (RPKM 7.6) and 14 other tissues See more
Orthologs
human all
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Genomic context

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Location:
5 F; 5 62.02 cM
Exon count:
29
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (121996025..122188522, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (121857962..122050415, complement)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer mm9_chr5:122298757-122299058 Neighboring gene predicted gene, 32422 Neighboring gene PH domain containing endocytic trafficking adaptor 1 Neighboring gene predicted gene, 52785 Neighboring gene uncharacterized LOC118568726 Neighboring gene predicted gene, 52786 Neighboring gene VISTA enhancer mm77 Neighboring gene myosin, light polypeptide 2, regulatory, cardiac, slow Neighboring gene coiled-coil domain containing 63

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Reinforcement Learning Recruits Somata and Apical Dendrites across Layers of Primary Sensory Cortex. Lacefield CO, et al. Cell Rep, 2019 Feb 19. PMID 30784583, Free PMC Article
  2. Cux2 serves as a novel lineage marker of granule cell layer neurons from the rhombic lip in mouse and chick embryos. Capaldo E, et al. Dev Dyn, 2016 Aug. PMID 27198720
  3. CUX2 deficiency causes facilitation of excitatory synaptic transmission onto hippocampus and increased seizure susceptibility to kainate. Suzuki T, et al. Sci Rep, 2022 May 17. PMID 35581205, Free PMC Article
  4. General anesthesia globally synchronizes activity selectively in layer 5 cortical pyramidal neurons. Bharioke A, et al. Neuron, 2022 Jun 15. PMID 35452606, Free PMC Article
  5. Cortical Observation by Synchronous Multifocal Optical Sampling Reveals Widespread Population Encoding of Actions. Kauvar IV, et al. Neuron, 2020 Jul 22. PMID 32433908, Free PMC Article

See all (175) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. LHX2 binding site in Cux2-E1 enhancer is evolutionally conserved.Lhx2 regulates Cux2 expression in cortical layer II-IV during brain development.
    Title: Cux2 expression regulated by Lhx2 in the upper layer neurons of the developing cortex.
  2. homeobox TF Lmx1a can activate the Cux2 enhancer through activation of a conserved intronic enhancer
    Title: Lmx1a drives Cux2 expression in the cortical hem through activation of a conserved intronic enhancer.
  3. CUX2 inhibited HNF6 transcriptional regulation of the sex-specific gene promoters CYP2C11 and CYP2C12, blocking HNF6 repression of CYP2C11 and HNF6 activation of CYP2C12.
    Title: Cross Talk Between GH-Regulated Transcription Factors HNF6 and CUX2 in Adult Mouse Liver.
  4. results suggest that the persistent expression of CUX2 in postmitotic neurons contributes to the maintenance of genome integrity through its stimulation of oxidative DNA damage repair.
    Title: CUX2 protein functions as an accessory factor in the repair of oxidative DNA damage.
  5. Results suggest that Cux2 expression reflects hippocampal neurogenesis and identifies non-self-renewing neural progenitors in the subgranular zone of the dentate gyrus
    Title: Cux2 activity defines a subpopulation of perinatal neurogenic progenitors in the hippocampus.
  6. Results suggest that by their differential effects on basal and apical dendrites, Cux1 and Cux2 can promote the integration of layer II-III neurons in the intracortical networks in highly specific ways
    Title: Cux1 and Cux2 selectively target basal and apical dendritic compartments of layer II-III cortical neurons.
  7. Cux2-positive radial glial cells generate diverse subtypes of neocortical projection neurons and macroglia
    Title: Cux2-positive radial glial cells generate diverse subtypes of neocortical projection neurons and macroglia.
  8. Cux2 activity plays an important role for ongoing neurogenesis in the olfactory epithelium
    Title: Cux2 acts as a critical regulator for neurogenesis in the olfactory epithelium of vertebrates.
  9. The downregulation of CUX2 in male liver at puberty contributes to the developmental changes establishing adult patterns of sex-specific gene expression.
    Title: Impact of CUX2 on the female mouse liver transcriptome: activation of female-biased genes and repression of male-biased genes.
  10. Cux2 is expressed and may participate in development of a specific subtype of myelinated TrkA(+) nociceptors.
    Title: The transcription factor Cux2 marks development of an A-delta sublineage of TrkA sensory neurons.
Submit: New GeneRIF Correction See all GeneRIFs (17)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA-binding transcription repressor activity, RNA polymerase II-specific IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables sequence-specific double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within cellular response to organic substance IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in cognition ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within negative regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of dendrite morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of dendritic spine morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of excitatory postsynaptic potential IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of synapse assembly IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in short-term memory IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
homeobox protein cut-like 2
Names
homeobox protein Cux-2

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001312908.2 → NP_001299837.1  homeobox protein cut-like 2 isoform 1

    Status: REVIEWED

    Source sequence(s)
    AC113302, AC140353
    Consensus CDS
    CCDS39251.1
    UniProtKB/Swiss-Prot
    P70298, Q6P1E6
    Related
    ENSMUSP00000107381.3, ENSMUST00000111752.10
    Conserved Domains (3) summary
    COG1196
    Location:121 → 315
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:1116 → 1170
    Homeobox; Homeobox domain
    pfam02376
    Location:988 → 1064
    CUT; CUT domain

  2. NM_001415780.2 → NP_001402709.1  homeobox protein cut-like 2 isoform 2

    Status: REVIEWED

    Source sequence(s)
    AC113302, AC140353

  3. NM_001428516.1 → NP_001415445.1  homeobox protein cut-like 2 isoform 1

    Status: REVIEWED

    Source sequence(s)
    AC113302, AC140353
    UniProtKB/Swiss-Prot
    P70298, Q6P1E6

  4. NM_001428517.1 → NP_001415446.1  homeobox protein cut-like 2 isoform 1

    Status: REVIEWED

    Source sequence(s)
    AC113302, AC124189
    UniProtKB/Swiss-Prot
    P70298, Q6P1E6

  5. NM_001428518.1 → NP_001415447.1  homeobox protein cut-like 2 isoform 3

    Status: REVIEWED

    Source sequence(s)
    AC113302, AC124189

  6. NM_007804.3 → NP_031830.2  homeobox protein cut-like 2 isoform 1

    See identical proteins and their annotated locations for NP_031830.2

    Status: REVIEWED

    Source sequence(s)
    AC113302, AC140353
    Consensus CDS
    CCDS39251.1
    UniProtKB/Swiss-Prot
    P70298, Q6P1E6
    Related
    ENSMUSP00000083497.6, ENSMUST00000086317.12
    Conserved Domains (3) summary
    COG1196
    Location:121 → 315
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:1116 → 1170
    Homeobox; Homeobox domain
    pfam02376
    Location:988 → 1064
    CUT; CUT domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000071.7 Reference GRCm39 C57BL/6J

    Range
    121996025..122188522 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011248166.4 → XP_011246468.1  homeobox protein cut-like 2 isoform X4

    Conserved Domains (3) summary
    COG1196
    Location:199 → 393
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:1205 → 1259
    Homeobox; Homeobox domain
    pfam02376
    Location:1077 → 1150
    CUT; CUT domain

  2. XM_030254117.2 → XP_030109977.1  homeobox protein cut-like 2 isoform X3

    Conserved Domains (3) summary
    COG1196
    Location:274 → 505
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:1265 → 1319
    Homeobox; Homeobox domain
    pfam02376
    Location:1137 → 1210
    CUT; CUT domain

  3. XM_030254116.2 → XP_030109976.1  homeobox protein cut-like 2 isoform X2

    Conserved Domains (3) summary
    COG1196
    Location:279 → 473
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:1274 → 1328
    Homeobox; Homeobox domain
    pfam02376
    Location:1146 → 1219
    CUT; CUT domain

  4. XM_011248171.4 → XP_011246473.2  homeobox protein cut-like 2 isoform X1

    Conserved Domains (3) summary
    COG1196
    Location:279 → 473
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:1285 → 1339
    Homeobox; Homeobox domain
    pfam02376
    Location:1157 → 1230
    CUT; CUT domain

  5. XM_011248173.3 → XP_011246475.1  homeobox protein cut-like 2 isoform X6

    See identical proteins and their annotated locations for XP_011246475.1

    Conserved Domains (3) summary
    COG1196
    Location:121 → 315
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:1127 → 1181
    Homeobox; Homeobox domain
    pfam02376
    Location:999 → 1072
    CUT; CUT domain

  6. XM_030254118.2 → XP_030109978.1  homeobox protein cut-like 2 isoform X7

    UniProtKB/Swiss-Prot
    P70298, Q6P1E6
    Conserved Domains (3) summary
    COG1196
    Location:121 → 315
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:1116 → 1170
    Homeobox; Homeobox domain
    pfam02376
    Location:988 → 1064
    CUT; CUT domain

  7. XM_011248167.3 → XP_011246469.1  homeobox protein cut-like 2 isoform X6

    See identical proteins and their annotated locations for XP_011246469.1

    Conserved Domains (3) summary
    COG1196
    Location:121 → 315
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:1127 → 1181
    Homeobox; Homeobox domain
    pfam02376
    Location:999 → 1072
    CUT; CUT domain

  8. XM_030254119.2 → XP_030109979.1  homeobox protein cut-like 2 isoform X7

    UniProtKB/Swiss-Prot
    P70298, Q6P1E6
    Conserved Domains (3) summary
    COG1196
    Location:121 → 315
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:1116 → 1170
    Homeobox; Homeobox domain
    pfam02376
    Location:988 → 1064
    CUT; CUT domain

  9. XM_011248168.4 → XP_011246470.1  homeobox protein cut-like 2 isoform X6

    See identical proteins and their annotated locations for XP_011246470.1

    Conserved Domains (3) summary
    COG1196
    Location:121 → 315
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:1127 → 1181
    Homeobox; Homeobox domain
    pfam02376
    Location:999 → 1072
    CUT; CUT domain

  10. XM_011248169.4 → XP_011246471.1  homeobox protein cut-like 2 isoform X6

    See identical proteins and their annotated locations for XP_011246471.1

    Conserved Domains (3) summary
    COG1196
    Location:121 → 315
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:1127 → 1181
    Homeobox; Homeobox domain
    pfam02376
    Location:999 → 1072
    CUT; CUT domain

  11. XM_011248170.4 → XP_011246472.1  homeobox protein cut-like 2 isoform X6

    See identical proteins and their annotated locations for XP_011246472.1

    Conserved Domains (3) summary
    COG1196
    Location:121 → 315
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:1127 → 1181
    Homeobox; Homeobox domain
    pfam02376
    Location:999 → 1072
    CUT; CUT domain

  12. XM_011248172.4 → XP_011246474.1  homeobox protein cut-like 2 isoform X6

    See identical proteins and their annotated locations for XP_011246474.1

    Conserved Domains (3) summary
    COG1196
    Location:121 → 315
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:1127 → 1181
    Homeobox; Homeobox domain
    pfam02376
    Location:999 → 1072
    CUT; CUT domain

  13. XM_036164774.1 → XP_036020667.1  homeobox protein cut-like 2 isoform X7

    Conserved Domains (3) summary
    COG1196
    Location:121 → 315
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:1116 → 1170
    Homeobox; Homeobox domain
    pfam02376
    Location:988 → 1064
    CUT; CUT domain

  14. XM_011248176.4 → XP_011246478.1  homeobox protein cut-like 2 isoform X6

    See identical proteins and their annotated locations for XP_011246478.1

    Conserved Domains (3) summary
    COG1196
    Location:121 → 315
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:1127 → 1181
    Homeobox; Homeobox domain
    pfam02376
    Location:999 → 1072
    CUT; CUT domain

  15. XM_036164775.1 → XP_036020668.1  homeobox protein cut-like 2 isoform X8

    Conserved Domains (3) summary
    COG1196
    Location:121 → 315
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:1096 → 1150
    Homeobox; Homeobox domain
    pfam02376
    Location:968 → 1044
    CUT; CUT domain

  16. XM_017320655.3 → XP_017176144.1  homeobox protein cut-like 2 isoform X9

    Conserved Domains (3) summary
    COG1196
    Location:4 → 132
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:948 → 1002
    Homeobox; Homeobox domain
    pfam02376
    Location:820 → 893
    CUT; CUT domain

  17. XM_030254120.2 → XP_030109980.1  homeobox protein cut-like 2 isoform X9

    Conserved Domains (3) summary
    COG1196
    Location:4 → 132
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam00046
    Location:948 → 1002
    Homeobox; Homeobox domain
    pfam02376
    Location:820 → 893
    CUT; CUT domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P70298.2 GenPept UniProtKB/Swiss-Prot:P70298

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