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Aliases for CCNT1 Gene

Aliases for CCNT1 Gene

  • Cyclin T1 2 3 5
  • Human Immunodeficiency Virus Type 1 (HIV-1) Expression (Elevated) 1 2 3
  • CYCT1 3 4
  • CDK9-Associated C-Type Protein 3
  • Cyclin C-Related Protein 3
  • MLLT10/CCNT1 Fusion 3
  • Cyclin-T1 3
  • Cyclin-T 4
  • HIVE1 3
  • CCNT 3

External Ids for CCNT1 Gene

Previous HGNC Symbols for CCNT1 Gene

  • HIVE1

Previous GeneCards Identifiers for CCNT1 Gene

  • GC12M049053
  • GC12M048803
  • GC12M047373
  • GC12M047372
  • GC12M049086
  • GC12M046120
  • GC12M049087
  • GC12M049093

Summaries for CCNT1 Gene

Entrez Gene Summary for CCNT1 Gene

  • This gene encodes a member of the highly conserved cyclin C subfamily. The encoded protein tightly associates with cyclin-dependent kinase 9, and is a major subunit of positive transcription elongation factor b (p-TEFb). In humans, there are multiple forms of positive transcription elongation factor b, which may include one of several different cyclins along with cyclin-dependent kinase 9. The complex containing the encoded cyclin and cyclin-dependent kinase 9 acts as a cofactor of human immunodeficiency virus type 1 (HIV-1) Tat protein, and is both necessary and sufficient for full activation of viral transcription. This cyclin and its kinase partner are also involved in triggering transcript elongation through phosphorylation of the carboxy-terminal domain of the largest RNA polymerase II subunit. Overexpression of this gene is implicated in tumor growth. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Apr 2013]

GeneCards Summary for CCNT1 Gene

CCNT1 (Cyclin T1) is a Protein Coding gene. Diseases associated with CCNT1 include Human Immunodeficiency Virus Type 1. Among its related pathways are Formation of HIV elongation complex in the absence of HIV Tat and Gene Expression. Gene Ontology (GO) annotations related to this gene include chromatin binding and transcription regulatory region DNA binding. An important paralog of this gene is CCNT2.

UniProtKB/Swiss-Prot for CCNT1 Gene

  • Regulatory subunit of the cyclin-dependent kinase pair (CDK9/cyclin-T1) complex, also called positive transcription elongation factor B (P-TEFb), which is proposed to facilitate the transition from abortive to productive elongation by phosphorylating the CTD (carboxy-terminal domain) of the large subunit of RNA polymerase II (RNA Pol II).

  • (Microbial infection) In case of HIV or SIV infections, binds to the transactivation domain of the viral nuclear transcriptional activator, Tat, thereby increasing Tats affinity for the transactivating response RNA element (TAR RNA). Serves as an essential cofactor for Tat, by promoting RNA Pol II activation, allowing transcription of viral genes.

Gene Wiki entry for CCNT1 Gene

Additional gene information for CCNT1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CCNT1 Gene

Genomics for CCNT1 Gene

GeneHancer (GH) Regulatory Elements for CCNT1 Gene

Promoters and enhancers for CCNT1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH12I048714 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 579.4 +0.5 529 3.1 MLX DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 NFYC CCNT1 KANSL2 LMBR1L SENP1 DDX23 KMT2D LOC390314 CCDC184 HDAC7 CACNB3
GH12I048865 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 121.1 -149.2 -149232 2.2 HDGF PKNOX1 FOXA2 ZFP64 ARID4B SIN3A FEZF1 ZNF2 YY1 SLC30A9 RND1 DDX23 KMT2D KANSL2 LOC390314 CCNT1 LMBR1L SENP1 BCDIN3D PRPF40B
GH12I049263 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 87 -549.5 -549531 6.6 CLOCK DMAP1 YY1 ZNF213 ZNF143 ZNF263 SP3 NFYC ZFP41 MEF2D TUBA1C ENSG00000258101 DDX23 KMT2D CCNT1 LMBR1L LOC390314 KANSL2 SMARCD1 BCDIN3D
GH12I049129 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE dbSUPER 68.9 -414.4 -414369 4.6 CLOCK MLX FEZF1 DMAP1 YBX1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ENSG00000200309 GC12M049133 TUBA1B DDX23 LMBR1L KMT2D SMARCD1 LOC390314 BCDIN3D CCNT1
GH12I048104 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 62.9 +610.7 610708 4.1 ZFP64 FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 SENP1 PFKM DDX23 KMT2D CCNT1 LOC390314 KANSL2 RPL37P19 OR5BK1P HDAC7
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around CCNT1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CCNT1 gene promoter:

Genomic Locations for CCNT1 Gene

Genomic Locations for CCNT1 Gene
chr12:48,688,458-48,716,998
(GRCh38/hg38)
Size:
28,541 bases
Orientation:
Minus strand
chr12:49,082,247-49,110,781
(GRCh37/hg19)

Genomic View for CCNT1 Gene

Genes around CCNT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CCNT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CCNT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CCNT1 Gene

Proteins for CCNT1 Gene

  • Protein details for CCNT1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O60563-CCNT1_HUMAN
    Recommended name:
    Cyclin-T1
    Protein Accession:
    O60563
    Secondary Accessions:
    • A9XU13
    • E7EX76
    • O60581

    Protein attributes for CCNT1 Gene

    Size:
    726 amino acids
    Molecular mass:
    80685 Da
    Quaternary structure:
    • Cyclin-T1 is the predominant cyclin that associates with CDK9 to form a heterodimer called P-TEFb. P-TEFb forms a complex with AFF4/AF5Q31. Component of a complex which is at least composed of HTATSF1/Tat-SF1, P-TEFb complex, RNA pol II, SUPT5H, and NCL/nucleolin (PubMed:10393184). Component of the 7SK snRNP complex at least composed of P-TEFb (composed of CDK9 and CCNT1/cyclin-T1), HEXIM1, HEXIM2, BCDIN3, SART3 proteins and 7SK and U6 snRNAs (PubMed:17643375). Interacts with BRD4, probably to target chromatin binding (PubMed:16109376, PubMed:16109377). Interacts with MDFIC (PubMed:12944466). Interacts with HSF1 (PubMed:27189267). Interacts with HTATSF1 (PubMed:10913173). Interacts with AFF4 (PubMed:12065898). Interacts with TBX21 (PubMed:27292648).
    • (Microbial infection) Interacts with the transactivation region of HIV-1, HIV-2 and SIV Tat.
    Miscellaneous:
    • Interaction between Tat and cyclin-T1 requires zinc.

    Three dimensional structures from OCA and Proteopedia for CCNT1 Gene

    Alternative splice isoforms for CCNT1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CCNT1 Gene

Post-translational modifications for CCNT1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for CCNT1 Gene

No data available for DME Specific Peptides for CCNT1 Gene

Domains & Families for CCNT1 Gene

Gene Families for CCNT1 Gene

HGNC:
Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for CCNT1 Gene

Suggested Antigen Peptide Sequences for CCNT1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O60563

UniProtKB/Swiss-Prot:

CCNT1_HUMAN :
  • Belongs to the cyclin family. Cyclin C subfamily.
Family:
  • Belongs to the cyclin family. Cyclin C subfamily.
genes like me logo Genes that share domains with CCNT1: view

Function for CCNT1 Gene

Molecular function for CCNT1 Gene

GENATLAS Biochemistry:
cyclin T1,87kDa,associating with the transcription elongation factor CDK9,interacting with HIV-1Tat and mediating its high affinity to TAR
UniProtKB/Swiss-Prot Function:
Regulatory subunit of the cyclin-dependent kinase pair (CDK9/cyclin-T1) complex, also called positive transcription elongation factor B (P-TEFb), which is proposed to facilitate the transition from abortive to productive elongation by phosphorylating the CTD (carboxy-terminal domain) of the large subunit of RNA polymerase II (RNA Pol II).
UniProtKB/Swiss-Prot Function:
(Microbial infection) In case of HIV or SIV infections, binds to the transactivation domain of the viral nuclear transcriptional activator, Tat, thereby increasing Tats affinity for the transactivating response RNA element (TAR RNA). Serves as an essential cofactor for Tat, by promoting RNA Pol II activation, allowing transcription of viral genes.

Phenotypes From GWAS Catalog for CCNT1 Gene

Gene Ontology (GO) - Molecular Function for CCNT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IDA 16109376
GO:0003682 chromatin binding IEA --
GO:0004674 protein serine/threonine kinase activity TAS --
GO:0005515 protein binding IPI 9499409
GO:0008134 transcription factor binding IPI 25116364
genes like me logo Genes that share ontologies with CCNT1: view
genes like me logo Genes that share phenotypes with CCNT1: view

Animal Model Products

miRNA for CCNT1 Gene

miRTarBase miRNAs that target CCNT1

Clone Products

  • Addgene plasmids for CCNT1

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CCNT1 Gene

Localization for CCNT1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CCNT1 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CCNT1 gene
Compartment Confidence
nucleus 5
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for CCNT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA,IEA 12944466
GO:0005654 nucleoplasm TAS --
GO:0005730 NOT nucleolus IDA 16109376
GO:0008024 cyclin/CDK positive transcription elongation factor complex IDA 9499409
genes like me logo Genes that share ontologies with CCNT1: view

Pathways & Interactions for CCNT1 Gene

genes like me logo Genes that share pathways with CCNT1: view

SIGNOR curated interactions for CCNT1 Gene

Activates:
Is activated by:

Gene Ontology (GO) - Biological Process for CCNT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000079 regulation of cyclin-dependent protein serine/threonine kinase activity TAS 9499409
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006366 transcription by RNA polymerase II TAS --
GO:0006368 transcription elongation from RNA polymerase II promoter TAS --
genes like me logo Genes that share ontologies with CCNT1: view

Drugs & Compounds for CCNT1 Gene

(11) Drugs for CCNT1 Gene - From: ApexBio and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
RGB-286638 Pharma CDKs inhibitor 0
RGB-286638 free base Pharma 0

(2) Additional Compounds for CCNT1 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs

(2) ApexBio Compounds for CCNT1 Gene

Compound Action Cas Number
RGB-286638 CDKs inhibitor 784210-87-3
RGB-286638 free base 784210-88-4
genes like me logo Genes that share compounds with CCNT1: view

Drug Products

Transcripts for CCNT1 Gene

mRNA/cDNA for CCNT1 Gene

(3) REFSEQ mRNAs :
(7) Additional mRNA sequences :
(3) Selected AceView cDNA sequences:
(6) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CCNT1 Gene

Cyclin T1:
Representative Sequences:

Clone Products

  • Addgene plasmids for CCNT1

Alternative Splicing Database (ASD) splice patterns (SP) for CCNT1 Gene

No ASD Table

Relevant External Links for CCNT1 Gene

GeneLoc Exon Structure for
CCNT1
ECgene alternative splicing isoforms for
CCNT1

Expression for CCNT1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CCNT1 Gene

Protein differential expression in normal tissues from HIPED for CCNT1 Gene

This gene is overexpressed in Liver (38.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for CCNT1 Gene



Protein tissue co-expression partners for CCNT1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CCNT1 Gene:

CCNT1

SOURCE GeneReport for Unigene cluster for CCNT1 Gene:

Hs.92308

mRNA Expression by UniProt/SwissProt for CCNT1 Gene:

O60563-CCNT1_HUMAN
Tissue specificity: Ubiquitously expressed.

Evidence on tissue expression from TISSUES for CCNT1 Gene

  • Blood(2.1)
  • Nervous system(2.1)
genes like me logo Genes that share expression patterns with CCNT1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for CCNT1 Gene

Orthologs for CCNT1 Gene

This gene was present in the common ancestor of animals.

Orthologs for CCNT1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CCNT1 33 34
  • 99.76 (n)
dog
(Canis familiaris)
Mammalia CCNT1 33 34
  • 93.63 (n)
cow
(Bos Taurus)
Mammalia CCNT1 33 34
  • 90.43 (n)
mouse
(Mus musculus)
Mammalia Ccnt1 33 16 34
  • 86.9 (n)
rat
(Rattus norvegicus)
Mammalia Ccnt1 33
  • 83.85 (n)
oppossum
(Monodelphis domestica)
Mammalia CCNT1 34
  • 74 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CCNT1 34
  • 69 (a)
OneToOne
chicken
(Gallus gallus)
Aves CCNT1 33 34
  • 67.05 (n)
lizard
(Anolis carolinensis)
Reptilia CCNT1 34
  • 70 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii ccnt1 33 34
  • 59.39 (n)
Dr.18505 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.5159 33
fruit fly
(Drosophila melanogaster)
Insecta CycT 35 34
  • 57 (a)
worm
(Caenorhabditis elegans)
Secernentea cit-1.1 34
  • 25 (a)
ManyToMany
cit-1.2 34
  • 24 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 61 (a)
OneToMany
Species where no ortholog for CCNT1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for CCNT1 Gene

ENSEMBL:
Gene Tree for CCNT1 (if available)
TreeFam:
Gene Tree for CCNT1 (if available)

Paralogs for CCNT1 Gene

Paralogs for CCNT1 Gene

(2) SIMAP similar genes for CCNT1 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with CCNT1: view

Variants for CCNT1 Gene

Sequence variations from dbSNP and Humsavar for CCNT1 Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs1000108153 -- 48,704,586(-) A/G intron_variant
rs1000211999 -- 48,705,992(-) T/C/G intron_variant
rs1000265176 -- 48,700,547(-) C/A intron_variant
rs1000311266 -- 48,711,573(-) T/C intron_variant
rs1000317904 -- 48,700,253(-) A/G intron_variant

Structural Variations from Database of Genomic Variants (DGV) for CCNT1 Gene

Variant ID Type Subtype PubMed ID
nsv473809 CNV novel sequence insertion 20440878

Variation tolerance for CCNT1 Gene

Residual Variation Intolerance Score: 48.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.28; 53.05% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CCNT1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CCNT1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CCNT1 Gene

Disorders for CCNT1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for CCNT1 Gene - From: GeneCards

Disorder Aliases PubMed IDs
human immunodeficiency virus type 1
  • human immunodeficiency virus type 1, susceptibility to
- elite association - COSMIC cancer census association via MalaCards
Search CCNT1 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for CCNT1

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with CCNT1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CCNT1 Gene

Publications for CCNT1 Gene

  1. A novel CDK9-associated C-type cyclin interacts directly with HIV-1 Tat and mediates its high-affinity, loop-specific binding to TAR RNA. (PMID: 9491887) Wei P … Jones KA (Cell 1998) 2 3 4 22 58
  2. Identification of multiple cyclin subunits of human P-TEFb. (PMID: 9499409) Peng J … Price DH (Genes & development 1998) 2 3 4 22 58
  3. Evidence for conformational flexibility in the Tat-TAR recognition motif of cyclin T1. (PMID: 14972556) Das C … Frankel AD (Virology 2004) 3 4 22 58
  4. The human I-mfa domain-containing protein, HIC, interacts with cyclin T1 and modulates P-TEFb-dependent transcription. (PMID: 12944466) Young TM … Mathews MB (Molecular and cellular biology 2003) 3 4 22 58
  5. Relief of two built-In autoinhibitory mechanisms in P-TEFb is required for assembly of a multicomponent transcription elongation complex at the human immunodeficiency virus type 1 promoter. (PMID: 10913173) Fong YW … Zhou Q (Molecular and cellular biology 2000) 3 4 22 58

Products for CCNT1 Gene

  • Addgene plasmids for CCNT1