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Aliases for CCNL1 Gene

Aliases for CCNL1 Gene

  • Cyclin L1 2 3 5
  • Cyclin-L 3 4
  • Cyclin L Ania-6a 3
  • Cyclin L Gamma 3
  • Cyclin-L1 3
  • PRO1073 3
  • Ania-6a 3
  • ANIA6A 3
  • BM-001 3

External Ids for CCNL1 Gene

Previous GeneCards Identifiers for CCNL1 Gene

  • GC03M157812
  • GC03M158147
  • GC03M158186
  • GC03M158348
  • GC03M156864
  • GC03M154261

Summaries for CCNL1 Gene

GeneCards Summary for CCNL1 Gene

CCNL1 (Cyclin L1) is a Protein Coding gene. Diseases associated with CCNL1 include Squamous Cell Carcinoma, Head And Neck. Gene Ontology (GO) annotations related to this gene include protein kinase binding. An important paralog of this gene is CCNL2.

UniProtKB/Swiss-Prot for CCNL1 Gene

  • Involved in pre-mRNA splicing. Functions in association with cyclin-dependent kinases (CDKs) (PubMed:18216018). Inhibited by the CDK-specific inhibitor CDKN1A/p21 (PubMed:11980906). May play a role in the regulation of RNA polymerase II (pol II). May be a candidate proto-oncogene in head and neck squamous cell carcinomas (HNSCC) (PubMed:12414649, PubMed:15700036).

Gene Wiki entry for CCNL1 Gene

Additional gene information for CCNL1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CCNL1 Gene

Genomics for CCNL1 Gene

GeneHancer (GH) Regulatory Elements for CCNL1 Gene

Promoters and enhancers for CCNL1 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
GH03I157155 Promoter/Enhancer 2.7 UCNEbase EPDnew Ensembl ENCODE dbSUPER 587.9 +1.9 1878 7.1 CLOCK MLX ZFP64 FEZF1 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF143 CCNL1 KRT18P34 ENSG00000243176 LINC00880 ENSG00000201778
GH03I156673 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 32.2 +480.2 480249 14.4 CLOCK FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 ZNF263 TIPARP CCNL1 LINC00886 LEKR1 SSR3 TIPARP-AS1 PIR33904 METTL15P1
GH03I157085 Promoter/Enhancer 2.2 FANTOM5 Ensembl ENCODE dbSUPER 36.4 +72.1 72067 6.2 HDGF PKNOX1 FOXA2 SMAD1 ARNT MLX ARID4B SIN3A FEZF1 DMAP1 LINC00881 CCNL1 TIPARP-AS1 TIPARP ENSG00000241770 KRT18P34 SSR3 KCNAB1-AS1 LINC02029 LINC00880
GH03I157124 Enhancer 2 VISTA FANTOM5 Ensembl ENCODE dbSUPER 24 +29.3 29312 13.5 HDGF PKNOX1 FOXA2 MLX ARNT ZFP64 ARID4B FEZF1 DMAP1 ZNF2 GC03M157131 KRT18P34 CCNL1 LEKR1 LINC00880 ENSG00000241770 TIPARP SSR3 TIPARP-AS1
GH03I157173 Promoter/Enhancer 1.8 Ensembl ENCODE dbSUPER 22.5 -14.5 -14476 3.6 CLOCK MLX ZFP64 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 ENSG00000243176 RNA5SP146 KRT18P34 CCNL1 TIPARP LOC101928236 LOC100420048
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around CCNL1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CCNL1 gene promoter:

Genomic Locations for CCNL1 Gene

Genomic Locations for CCNL1 Gene
chr3:157,146,364-157,160,760
(GRCh38/hg38)
Size:
14,397 bases
Orientation:
Minus strand
chr3:156,864,297-156,878,549
(GRCh37/hg19)

Genomic View for CCNL1 Gene

Genes around CCNL1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CCNL1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CCNL1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CCNL1 Gene

Proteins for CCNL1 Gene

  • Protein details for CCNL1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UK58-CCNL1_HUMAN
    Recommended name:
    Cyclin-L1
    Protein Accession:
    Q9UK58
    Secondary Accessions:
    • B3KMY3
    • C9JPL0
    • Q6NVY9
    • Q6UWS7
    • Q8NI48
    • Q96QT0
    • Q9NZF3

    Protein attributes for CCNL1 Gene

    Size:
    526 amino acids
    Molecular mass:
    59634 Da
    Quaternary structure:
    • Interacts with POLR2A via its hyperphosphorylated C-terminal domain (CTD) (By similarity). Interacts with CDK11A, CDK12 and CDK13 (PubMed:11980906, PubMed:18216018). Isoforms 1 and 2, but not isoform 3, interact with CDK11B. May form a ternary complex with CDK11B and casein kinase II (CKII) (PubMed:18216018). Interacts with pre-mRNA-splicing factors, including at least SRSF1, SRSF2 AND SRSF7/SLU7 (PubMed:11980906, PubMed:18216018).
    Miscellaneous:
    • CCNL1 is amplified in several HNSCC. May play a critical role in the formation of loco-regional metastases and an unfavorable clinical outcome of HNSCC.
    SequenceCaution:
    • Sequence=AAF64257.1; Type=Miscellaneous discrepancy; Note=Probable cloning artifact.; Evidence={ECO:0000305}; Sequence=AAQ89026.1; Type=Miscellaneous discrepancy; Note=Probable cloning artifact.; Evidence={ECO:0000305};

    Alternative splice isoforms for CCNL1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CCNL1 Gene

Post-translational modifications for CCNL1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for CCNL1 Gene

Domains & Families for CCNL1 Gene

Gene Families for CCNL1 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted secreted proteins

Protein Domains for CCNL1 Gene

Suggested Antigen Peptide Sequences for CCNL1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9UK58

UniProtKB/Swiss-Prot:

CCNL1_HUMAN :
  • Contains a RS region (arginine-serine dipeptide repeat) within the C-terminal domain which is the hallmark of the SR family of splicing factors. This region probably plays a role in protein-protein interactions.
  • Belongs to the cyclin family. Cyclin L subfamily.
Domain:
  • Contains a RS region (arginine-serine dipeptide repeat) within the C-terminal domain which is the hallmark of the SR family of splicing factors. This region probably plays a role in protein-protein interactions.
Family:
  • Belongs to the cyclin family. Cyclin L subfamily.
genes like me logo Genes that share domains with CCNL1: view

Function for CCNL1 Gene

Molecular function for CCNL1 Gene

GENATLAS Biochemistry:
cyclin like 1,most likely member of a new family of cyclins,with homology to mouse cyclin G
UniProtKB/Swiss-Prot Function:
Involved in pre-mRNA splicing. Functions in association with cyclin-dependent kinases (CDKs) (PubMed:18216018). Inhibited by the CDK-specific inhibitor CDKN1A/p21 (PubMed:11980906). May play a role in the regulation of RNA polymerase II (pol II). May be a candidate proto-oncogene in head and neck squamous cell carcinomas (HNSCC) (PubMed:12414649, PubMed:15700036).

Phenotypes From GWAS Catalog for CCNL1 Gene

Gene Ontology (GO) - Molecular Function for CCNL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
GO:0016538 cyclin-dependent protein serine/threonine kinase regulator activity IBA --
genes like me logo Genes that share ontologies with CCNL1: view
genes like me logo Genes that share phenotypes with CCNL1: view

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CCNL1 Gene

Localization for CCNL1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CCNL1 Gene

Nucleus speckle. Nucleus, nucleoplasm. Note=Found in nuclear intrachromatin granules clusters (IGC), also called nuclear speckles, which are storage compartments for nuclear proteins involved in mRNA processing. {ECO:0000250}.

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 CCNL1 gene
Compartment Confidence
nucleus 5
mitochondrion 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear bodies (3)
  • Nucleoplasm (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for CCNL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000307 cyclin-dependent protein kinase holoenzyme complex IBA --
GO:0005634 nucleus IDA 17494991
GO:0005654 nucleoplasm IEA --
GO:0016607 nuclear speck IEA --
genes like me logo Genes that share ontologies with CCNL1: view

Pathways & Interactions for CCNL1 Gene

SuperPathways for CCNL1 Gene

No Data Available

Pathways by source for CCNL1 Gene

1 GeneTex pathway for CCNL1 Gene

Gene Ontology (GO) - Biological Process for CCNL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006396 RNA processing IEA --
GO:0045737 positive regulation of cyclin-dependent protein serine/threonine kinase activity IBA --
GO:0045944 positive regulation of transcription by RNA polymerase II IBA --
genes like me logo Genes that share ontologies with CCNL1: view

No data available for SIGNOR curated interactions for CCNL1 Gene

Drugs & Compounds for CCNL1 Gene

No Compound Related Data Available

Transcripts for CCNL1 Gene

Unigene Clusters for CCNL1 Gene

Cyclin L1:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CCNL1 Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b · 3c · 3d ^ 4a · 4b ^ 5a · 5b · 5c · 5d ^ 6a · 6b · 6c ^ 7a · 7b ^ 8a · 8b ^ 9 ^ 10 ^ 11a · 11b · 11c ·
SP1: - - - - - - - -
SP2: - - - - - - - -
SP3: - - - - - - - - - -
SP4: - - - - - - - - - -
SP5:
SP6: - - - - -
SP7: - - -
SP8: - -
SP9: - - - - -
SP10:
SP11: - -
SP12: - - -
SP13: - - -
SP14:
SP15: -
SP16: - - - -
SP17:
SP18: - - -

ExUns: 11d ^ 12a · 12b ^ 13a · 13b ^ 14a · 14b · 14c ^ 15
SP1: - - -
SP2: - - -
SP3: - - -
SP4: - - - - - -
SP5: - - -
SP6: -
SP7:
SP8:
SP9:
SP10: - -
SP11:
SP12:
SP13:
SP14: - -
SP15:
SP16:
SP17: -
SP18:

Relevant External Links for CCNL1 Gene

GeneLoc Exon Structure for
CCNL1
ECgene alternative splicing isoforms for
CCNL1

Expression for CCNL1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CCNL1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for CCNL1 Gene

This gene is overexpressed in Heart (46.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for CCNL1 Gene



Protein tissue co-expression partners for CCNL1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CCNL1 Gene:

CCNL1

SOURCE GeneReport for Unigene cluster for CCNL1 Gene:

Hs.4859

mRNA Expression by UniProt/SwissProt for CCNL1 Gene:

Q9UK58-CCNL1_HUMAN
Tissue specificity: Widely expressed. Overexpression in primary tumors of head and neck squamous cell carcinomas (HNSCC).

Evidence on tissue expression from TISSUES for CCNL1 Gene

  • Nervous system(4.8)
  • Lung(4.6)
  • Bone marrow(4.5)
  • Liver(4.3)
  • Blood(2.4)
genes like me logo Genes that share expression patterns with CCNL1: view

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for CCNL1 Gene

Orthologs for CCNL1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for CCNL1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CCNL1 33 34
  • 99.81 (n)
dog
(Canis familiaris)
Mammalia CCNL1 34
  • 98 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CCNL1 33 34
  • 95.31 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia CCNL1 34
  • 94 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Ccnl1 33 16 34
  • 93.09 (n)
rat
(Rattus norvegicus)
Mammalia Ccnl1 33
  • 93.03 (n)
oppossum
(Monodelphis domestica)
Mammalia CCNL1 34
  • 89 (a)
OneToOne
chicken
(Gallus gallus)
Aves CCNL1 33 34
  • 81.77 (n)
lizard
(Anolis carolinensis)
Reptilia CCNL1 34
  • 78 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii ccnl1a 33 34
  • 70.36 (n)
ccnl1b 34
  • 66 (a)
OneToMany
Dr.28373 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.13166 33
fruit fly
(Drosophila melanogaster)
Insecta CG16903 34
  • 43 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea cyl-1 34
  • 36 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SSN8 34
  • 20 (a)
OneToMany
rice
(Oryza sativa)
Liliopsida Os.1541 33
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 49 (a)
OneToMany
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.11553 33
Species where no ortholog for CCNL1 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)
  • 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 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 CCNL1 Gene

ENSEMBL:
Gene Tree for CCNL1 (if available)
TreeFam:
Gene Tree for CCNL1 (if available)

Paralogs for CCNL1 Gene

Paralogs for CCNL1 Gene

(2) SIMAP similar genes for CCNL1 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with CCNL1: view

Variants for CCNL1 Gene

Sequence variations from dbSNP and Humsavar for CCNL1 Gene

SNP ID Clin Chr 03 pos Variation AA Info Type
rs1000009349 -- 157,149,099(-) A/G intron_variant
rs1000091104 -- 157,156,807(-) A/G intron_variant
rs1000438962 -- 157,159,759(-) A/T intron_variant
rs1000491333 -- 157,159,613(-) G/A/T intron_variant
rs1000674054 -- 157,150,309(-) G/A coding_sequence_variant, non_coding_transcript_variant, synonymous_variant

Structural Variations from Database of Genomic Variants (DGV) for CCNL1 Gene

Variant ID Type Subtype PubMed ID
esv2660786 CNV deletion 23128226
nsv520331 CNV loss 19592680
nsv819788 CNV loss 19587683
nsv829766 CNV gain 17160897

Variation tolerance for CCNL1 Gene

Residual Variation Intolerance Score: 29.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.62; 13.21% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CCNL1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CCNL1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CCNL1 Gene

Disorders for CCNL1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for CCNL1 Gene - From: DISEASES and Novoseek

Disorder Aliases PubMed IDs
squamous cell carcinoma, head and neck
  • hnscc
- elite association - COSMIC cancer census association via MalaCards
Search CCNL1 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for CCNL1

genes like me logo Genes that share disorders with CCNL1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CCNL1 Gene

Publications for CCNL1 Gene

  1. Characterization of cyclin L1 and L2 interactions with CDK11 and splicing factors: influence of cyclin L isoforms on splice site selection. (PMID: 18216018) Loyer P … Lahti JM (The Journal of biological chemistry 2008) 3 4 22 58
  2. Amplification of Cyclin L1 is associated with lymph node metastases in head and neck squamous cell carcinoma (HNSCC). (PMID: 15700036) Sticht C … Joos S (British journal of cancer 2005) 3 4 22 58
  3. Cyclin L is an RS domain protein involved in pre-mRNA splicing. (PMID: 11980906) Dickinson LA … Gottesfeld JM (The Journal of biological chemistry 2002) 2 3 4 58
  4. Amplicon mapping and transcriptional analysis pinpoint cyclin L as a candidate oncogene in head and neck cancer. (PMID: 12414649) Redon R … du Manoir S (Cancer research 2002) 3 4 22 58
  5. Characterization of cyclin L1 as an immobile component of the splicing factor compartment. (PMID: 17494991) Herrmann A … Becker W (FASEB journal : official publication of the Federation of American Societies for Experimental Biology 2007) 3 22 58

Products for CCNL1 Gene

Sources for CCNL1 Gene