Aliases for HNRNPCL1 Gene

Aliases for HNRNPCL1 Gene

  • Heterogeneous Nuclear Ribonucleoprotein C Like 1 2 3 5
  • Heterogeneous Nuclear Ribonucleoprotein C-Like 1 3 4
  • HnRNP Core Protein C-Like 1 3 4
  • HnRNP C-Like-1 3 4
  • HNRPCL1 3 4
  • HNRNPCL1 5

External Ids for HNRNPCL1 Gene

Previous HGNC Symbols for HNRNPCL1 Gene


Previous GeneCards Identifiers for HNRNPCL1 Gene

  • GC01M012830
  • GC01M012907
  • GC01M012060

Summaries for HNRNPCL1 Gene

GeneCards Summary for HNRNPCL1 Gene

HNRNPCL1 (Heterogeneous Nuclear Ribonucleoprotein C Like 1) is a Protein Coding gene. Diseases associated with HNRNPCL1 include Hypoplastic Right Heart Syndrome. Among its related pathways are mRNA Splicing - Major Pathway. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and nucleotide binding. An important paralog of this gene is HNRNPCL2.

UniProtKB/Swiss-Prot Summary for HNRNPCL1 Gene

  • May play a role in nucleosome assembly by neutralizing basic proteins such as A and B core hnRNPs.

Additional gene information for HNRNPCL1 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for HNRNPCL1 Gene

Genomics for HNRNPCL1 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for HNRNPCL1 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01J012848 Promoter 0.3 EPDnew 600.7 +0.2 244 0.1 HNRNPCL1 piR-41525-005 PRAMEF11
GH01J012851 Enhancer 0.4 Ensembl 0.7 -2.8 -2781 0.2 FOSL1 ZNF366 ZNF362 HNRNPCL1 PRAMEF2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around HNRNPCL1 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for HNRNPCL1

Top Transcription factor binding sites by QIAGEN in the HNRNPCL1 gene promoter:
  • Brachyury
  • Evi-1
  • FOXO3
  • FOXO3a
  • FOXO3b
  • GATA-1
  • LCR-F1
  • Pbx1a
  • PPAR-gamma1
  • YY1

Genomic Locations for HNRNPCL1 Gene

Genomic Locations for HNRNPCL1 Gene
1,344 bases
Minus strand
1,318 bases
Minus strand

Genomic View for HNRNPCL1 Gene

Genes around HNRNPCL1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HNRNPCL1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HNRNPCL1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HNRNPCL1 Gene

Proteins for HNRNPCL1 Gene

  • Protein details for HNRNPCL1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Heterogeneous nuclear ribonucleoprotein C-like 1
    Protein Accession:
    Secondary Accessions:
    • B2RP44

    Protein attributes for HNRNPCL1 Gene

    293 amino acids
    Molecular mass:
    32142 Da
    Quaternary structure:
    No Data Available

neXtProt entry for HNRNPCL1 Gene

Post-translational modifications for HNRNPCL1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for HNRNPCL1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for HNRNPCL1 Gene

Domains & Families for HNRNPCL1 Gene

Gene Families for HNRNPCL1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for HNRNPCL1 Gene

  • RNA-binding region RNP-1 (RNA recognition motif)

Suggested Antigen Peptide Sequences for HNRNPCL1 Gene

GenScript: Design optimal peptide antigens:
  • hnRNP core protein C-like 1 (HNRCL_HUMAN)
  • HNRPCL1 protein (Q6PKD2_HUMAN)

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the RRM HNRPC family. RALY subfamily.
  • Belongs to the RRM HNRPC family. RALY subfamily.
genes like me logo Genes that share domains with HNRNPCL1: view

Function for HNRNPCL1 Gene

Molecular function for HNRNPCL1 Gene

UniProtKB/Swiss-Prot Function:
May play a role in nucleosome assembly by neutralizing basic proteins such as A and B core hnRNPs.

Phenotypes From GWAS Catalog for HNRNPCL1 Gene

Gene Ontology (GO) - Molecular Function for HNRNPCL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IBA 21873635
genes like me logo Genes that share ontologies with HNRNPCL1: view
genes like me logo Genes that share phenotypes with HNRNPCL1: view

Animal Model Products

CRISPR Products

miRNA for HNRNPCL1 Gene

miRTarBase miRNAs that target HNRNPCL1

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for HNRNPCL1

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for HNRNPCL1 Gene

Localization for HNRNPCL1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HNRNPCL1 Gene

Nucleus. Note=Component of ribonucleosomes. {ECO:0000250}.

Subcellular locations from

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 HNRNPCL1 gene
Compartment Confidence
nucleus 4
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for HNRNPCL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA 21873635
genes like me logo Genes that share ontologies with HNRNPCL1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for HNRNPCL1 Gene

Pathways & Interactions for HNRNPCL1 Gene

PathCards logo

SuperPathways for HNRNPCL1 Gene

SuperPathway Contained pathways
1 mRNA Splicing - Major Pathway
genes like me logo Genes that share pathways with HNRNPCL1: view

Pathways by source for HNRNPCL1 Gene

1 KEGG pathway for HNRNPCL1 Gene

Gene Ontology (GO) - Biological Process for HNRNPCL1 Gene


No data available for SIGNOR curated interactions for HNRNPCL1 Gene

Drugs & Compounds for HNRNPCL1 Gene

No Compound Related Data Available

Transcripts for HNRNPCL1 Gene


4 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for HNRNPCL1

Alternative Splicing Database (ASD) splice patterns (SP) for HNRNPCL1 Gene

No ASD Table

Relevant External Links for HNRNPCL1 Gene

GeneLoc Exon Structure for

Expression for HNRNPCL1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for HNRNPCL1 Gene

mRNA differential expression in normal tissues according to GTEx for HNRNPCL1 Gene

This gene is overexpressed in Testis (x40.0), Brain - Cortex (x6.5), and Cervix - Ectocervix (x6.4).

Protein differential expression in normal tissues from HIPED for HNRNPCL1 Gene

This gene is overexpressed in Blymphocyte (11.6), Nasal epithelium (10.0), Tlymphocyte (9.9), Monocytes (9.0), Liver, secretome (7.8), and Breast (6.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for HNRNPCL1 Gene

Protein tissue co-expression partners for HNRNPCL1 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for HNRNPCL1

SOURCE GeneReport for Unigene cluster for HNRNPCL1 Gene:

genes like me logo Genes that share expression patterns with HNRNPCL1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for HNRNPCL1 Gene

Orthologs for HNRNPCL1 Gene

This gene was present in the common ancestor of animals.

Orthologs for HNRNPCL1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia -- 31
  • 96 (a)
-- 31
  • 95 (a)
(Ornithorhynchus anatinus)
Mammalia -- 31
  • 90 (a)
(Bos Taurus)
Mammalia HNRPC 31
  • 90 (a)
(Canis familiaris)
Mammalia -- 31
  • 89 (a)
-- 31
  • 75 (a)
(Mus musculus)
Mammalia Hnrnpc 31
  • 83 (a)
(Monodelphis domestica)
Mammalia -- 31
  • 76 (a)
(Anolis carolinensis)
Reptilia -- 31
  • 79 (a)
(Danio rerio)
Actinopterygii zgc:55733 31
  • 60 (a)
hnrnpc 31
  • 54 (a)
Fruit Fly
(Drosophila melanogaster)
Insecta CG42458 31
  • 12 (a)
Species where no ortholog for HNRNPCL1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • Chicken (Gallus gallus)
  • 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)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rat (Rattus norvegicus)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • 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)
  • Worm (Caenorhabditis elegans)

Evolution for HNRNPCL1 Gene

Gene Tree for HNRNPCL1 (if available)
Gene Tree for HNRNPCL1 (if available)

Paralogs for HNRNPCL1 Gene

Paralogs for HNRNPCL1 Gene

(7) SIMAP similar genes for HNRNPCL1 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with HNRNPCL1: view

Variants for HNRNPCL1 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for HNRNPCL1 Gene

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
rs767679031 Uncertain Significance: Rokitansky Kuster Hauser syndrome 12,847,525(-) AT/A FRAMESHIFT_VARIANT
rs2076063 - p.Val258Asp
rs2982092 - p.Asp81Val
rs6702447 - p.Gln208His

Additional dbSNP identifiers (rs#s) for HNRNPCL1 Gene

Structural Variations from Database of Genomic Variants (DGV) for HNRNPCL1 Gene

Variant ID Type Subtype PubMed ID
dgv114n54 CNV gain 21841781
dgv116n54 CNV loss 21841781
dgv117n54 CNV gain+loss 21841781
dgv120n54 CNV loss 21841781
dgv123n54 CNV gain+loss 21841781
dgv124n54 CNV loss 21841781
dgv125n54 CNV loss 21841781
dgv127n54 CNV loss 21841781
dgv129n54 CNV loss 21841781
dgv130n54 CNV loss 21841781
dgv131n54 CNV loss 21841781
dgv13n67 CNV loss 20364138
dgv14n67 CNV gain 20364138
dgv16n67 CNV gain 20364138
dgv1n64 CNV loss 17921354
dgv20n100 CNV loss 25217958
dgv21n100 CNV loss 25217958
dgv27n100 CNV gain+loss 25217958
dgv28n100 CNV gain+loss 25217958
dgv33n100 CNV loss 25217958
dgv5n27 CNV gain 19166990
dgv6e201 CNV deletion 23290073
dgv6e214 CNV loss 21293372
dgv6n111 CNV duplication 26073780
dgv6n27 CNV loss 19166990
dgv7e214 CNV gain 21293372
dgv7n111 CNV deletion 26073780
dgv8n27 CNV loss 19166990
dgv9n27 CNV gain 19166990
esv2421662 OTHER complex 20811451
esv2669351 CNV deletion 23128226
esv2678231 CNV deletion 23128226
esv2743853 CNV deletion 23290073
esv2743875 CNV deletion 23290073
esv2743920 CNV deletion 23290073
esv28644 CNV gain+loss 19812545
esv32750 CNV gain 17666407
esv3585241 CNV loss 21293372
esv3585246 CNV loss 21293372
esv3585247 CNV loss 21293372
esv3891192 CNV gain+loss 25118596
esv3891414 CNV gain+loss 25118596
esv3891748 CNV gain+loss 25118596
esv990214 CNV gain 20482838
nsv1002419 CNV gain 25217958
nsv1010920 CNV gain+loss 25217958
nsv1075770 CNV duplication 25765185
nsv1161105 CNV deletion 26073780
nsv1161161 CNV deletion 26073780
nsv1161165 CNV duplication 26073780
nsv2965 CNV deletion 18451855
nsv433182 CNV loss 18776910
nsv436469 CNV deletion 17901297
nsv460350 CNV loss 19166990
nsv466394 CNV gain 19166990
nsv470695 CNV loss 18288195
nsv470696 CNV gain 18288195
nsv528703 CNV loss 19592680
nsv545445 CNV gain 21841781
nsv545457 CNV loss 21841781
nsv545462 CNV gain 21841781
nsv7172 OTHER inversion 18451855
nsv817728 CNV gain+loss 17921354
nsv820528 CNV deletion 20802225
nsv832869 CNV gain+loss 17160897
nsv8768 CNV gain+loss 18304495
nsv945774 CNV duplication 23825009
nsv999194 CNV gain 25217958

Variation tolerance for HNRNPCL1 Gene

Residual Variation Intolerance Score: 99.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.66; 86.39% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for HNRNPCL1 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HNRNPCL1 Gene

Disorders for HNRNPCL1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for HNRNPCL1 Gene - From: DISEASES

Disorder Aliases PubMed IDs
hypoplastic right heart syndrome
  • right hypoplastic heart syndrome
- elite association - COSMIC cancer census association via MalaCards
genes like me logo Genes that share disorders with HNRNPCL1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for HNRNPCL1 Gene

Publications for HNRNPCL1 Gene

  1. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4
  2. A reference map of the human binary protein interactome. (PMID: 32296183) Luck K … Calderwood MA (Nature 2020) 3
  3. PLEKHA4/kramer Attenuates Dishevelled Ubiquitination to Modulate Wnt and Planar Cell Polarity Signaling. (PMID: 31091453) Shami Shah A … Baskin JM (Cell reports 2019) 3
  4. VIRMA mediates preferential m6A mRNA methylation in 3'UTR and near stop codon and associates with alternative polyadenylation. (PMID: 29507755) Yue Y … Liu J (Cell discovery 2018) 3
  5. The HIV-1 Tat protein recruits a ubiquitin ligase to reorganize the 7SK snRNP for transcriptional activation. (PMID: 29845934) Faust TB … Frankel AD (eLife 2018) 3

Products for HNRNPCL1 Gene

Sources for HNRNPCL1 Gene