Aliases for CSDE1 Gene

Aliases for CSDE1 Gene

  • Cold Shock Domain Containing E1 2 3 5
  • Cold Shock Domain Containing E1, RNA Binding 2 3
  • Cold Shock Domain-Containing Protein E1 3 4
  • N-Ras Upstream Gene Protein 3 4
  • Upstream Of NRAS 2 3
  • D1S155E 3 4
  • UNR 3 4
  • NRAS-Related 3
  • Protein UNR 4
  • KIAA0885 4
  • NRU 4

External Ids for CSDE1 Gene

Previous GeneCards Identifiers for CSDE1 Gene

  • GC01M114972
  • GC01M115049
  • GC01M115259
  • GC01M113117

Summaries for CSDE1 Gene

GeneCards Summary for CSDE1 Gene

CSDE1 (Cold Shock Domain Containing E1) is a Protein Coding gene. Diseases associated with CSDE1 include Nonparalytic Poliomyelitis and Bulbar Polio. Among its related pathways are Validated targets of C-MYC transcriptional repression. Gene Ontology (GO) annotations related to this gene include nucleic acid binding.

UniProtKB/Swiss-Prot Summary for CSDE1 Gene

  • RNA-binding protein. Required for internal initiation of translation of human rhinovirus RNA. May be involved in translationally coupled mRNA turnover. Implicated with other RNA-binding proteins in the cytoplasmic deadenylation/translational and decay interplay of the FOS mRNA mediated by the major coding-region determinant of instability (mCRD) domain.

Gene Wiki entry for CSDE1 Gene

Additional gene information for CSDE1 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CSDE1 Gene

Genomics for CSDE1 Gene

GeneHancer (GH) Regulatory Elements for CSDE1 Gene

Promoters and enhancers for CSDE1 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
GH01J114754 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 500.7 +2.0 1988 5 EP300 FOXK2 CTCF ZSCAN5C SIN3A NRF1 MYC TCF12 POLR2G USF1 TRIM33 CSDE1 lnc-SIKE1-2 SIKE1 OLFML3 RSBN1 TSPAN2 piR-58576
GH01J114715 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE CraniofacialAtlas 10.7 +42.3 42260 2.4 LARP7 EP300 ZBTB40 ZNF217 SIN3A NRF1 MYC POLR2G USF1 SP1 NRAS TRIM33 RSBN1 SIKE1 AP4B1-AS1 DENND2C CSDE1 HIPK1 TSPAN2 piR-43107-020
GH01J114719 Enhancer 0.7 dbSUPER 11.3 +38.1 38080 2.4 NCOR1 ZNF639 ZEB1 FOXA2 OSR2 NR2F2 CEBPB SAP130 ZBTB33 RBM22 lnc-NRAS-1 AMPD1 CSDE1 SIKE1 RNY1P13 RF00019-006
GH01J114504 Enhancer 0.7 ENCODE dbSUPER 9.9 +253.3 253290 1.6 NR3C1 RELA SPI1 E2F6 ELF1 FOXK2 E4F1 TEAD4 L3MBTL2 MAX piR-50444-030 CSDE1 AMPD1 TRIM33 ENSG00000201114
GH01J114712 Enhancer 0.6 Ensembl ENCODE 10.7 +45.4 45401 1.1 MYC POLR2A ZNF121 DENND2C CSDE1 NRAS piR-43107-020
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CSDE1 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for CSDE1

Top Transcription factor binding sites by QIAGEN in the CSDE1 gene promoter:
  • FOXC1
  • Gfi-1
  • NRSF form 1
  • NRSF form 2
  • Pax-4a

Genomic Locations for CSDE1 Gene

Genomic Locations for CSDE1 Gene
chr1:114,716,913-114,758,676
(GRCh38/hg38)
Size:
41,764 bases
Orientation:
Minus strand
chr1:115,259,534-115,301,297
(GRCh37/hg19)
Size:
41,764 bases
Orientation:
Minus strand

Genomic View for CSDE1 Gene

Genes around CSDE1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CSDE1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CSDE1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CSDE1 Gene

Proteins for CSDE1 Gene

  • Protein details for CSDE1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75534-CSDE1_HUMAN
    Recommended name:
    Cold shock domain-containing protein E1
    Protein Accession:
    O75534
    Secondary Accessions:
    • A8K281
    • E9PGZ0
    • G5E9Q2
    • O94961
    • Q5TF04
    • Q5TF05
    • Q68DF1
    • Q68DI9
    • Q9Y2S4

    Protein attributes for CSDE1 Gene

    Size:
    798 amino acids
    Molecular mass:
    88885 Da
    Quaternary structure:
    • Component of a multi subunit autoregulatory ribonucleoprotein complex (ARC), at least composed of IGF2BP1, PABPC1 and CSDE1. Interacts with STRAP. Part of a complex associated with the FOS mCRD domain and consisting of PABPC1, PAIP1, HNRPD and SYNCRIP. The interaction with PABPC1 is direct and RNA-independent.
    SequenceCaution:
    • Sequence=BAA74908.2; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=CAH18231.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for CSDE1 Gene

    Alternative splice isoforms for CSDE1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CSDE1 Gene

Post-translational modifications for CSDE1 Gene

  • Ubiquitination at Lys32, Lys166, Lys207, Lys239, Lys277, Lys295, Lys682, Lys729, and Lys758
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for CSDE1 Gene

Domains & Families for CSDE1 Gene

Gene Families for CSDE1 Gene

Human Protein Atlas (HPA):
  • Cancer-related genes
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for CSDE1 Gene

Blocks:
  • Cold-shock DNA-binding domain
  • Cold shock protein
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for CSDE1 Gene

GenScript: Design optimal peptide antigens:
  • Protein UNR (CSDE1_HUMAN)
  • CSDE1 protein (Q8WU01_HUMAN)
genes like me logo Genes that share domains with CSDE1: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for CSDE1 Gene

Function for CSDE1 Gene

Molecular function for CSDE1 Gene

UniProtKB/Swiss-Prot Function:
RNA-binding protein. Required for internal initiation of translation of human rhinovirus RNA. May be involved in translationally coupled mRNA turnover. Implicated with other RNA-binding proteins in the cytoplasmic deadenylation/translational and decay interplay of the FOS mRNA mediated by the major coding-region determinant of instability (mCRD) domain.

Phenotypes From GWAS Catalog for CSDE1 Gene

Gene Ontology (GO) - Molecular Function for CSDE1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA,IEA 22658674
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with CSDE1: view
genes like me logo Genes that share phenotypes with CSDE1: view

Animal Model Products

CRISPR Products

miRNA for CSDE1 Gene

miRTarBase miRNAs that target CSDE1

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CSDE1

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CSDE1 Gene

Localization for CSDE1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CSDE1 Gene

Cytoplasm.

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 CSDE1 gene
Compartment Confidence
cytosol 5
plasma membrane 4
golgi apparatus 4
nucleus 3
extracellular 1
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1
endosome 1
lysosome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (4)
  • Plasma membrane (4)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for CSDE1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
GO:0005794 Golgi apparatus IDA --
GO:0005829 cytosol IDA --
GO:0005886 plasma membrane IDA --
GO:0070937 CRD-mediated mRNA stability complex IDA 15314026
genes like me logo Genes that share ontologies with CSDE1: view

Pathways & Interactions for CSDE1 Gene

genes like me logo Genes that share pathways with CSDE1: view

Pathways by source for CSDE1 Gene

1 BioSystems pathway for CSDE1 Gene

Gene Ontology (GO) - Biological Process for CSDE1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008584 male gonad development TAS 2204029
GO:0070966 nuclear-transcribed mRNA catabolic process, no-go decay IMP 15314026
genes like me logo Genes that share ontologies with CSDE1: view

No data available for SIGNOR curated interactions for CSDE1 Gene

Drugs & Compounds for CSDE1 Gene

(1) Additional Compounds for CSDE1 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with CSDE1: view

Transcripts for CSDE1 Gene

mRNA/cDNA for CSDE1 Gene

6 REFSEQ mRNAs :
21 NCBI additional mRNA sequence :
18 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 CSDE1

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CSDE1 Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9a · 9b ^ 10a · 10b ^ 11 ^ 12a · 12b ^ 13a · 13b ^ 14a · 14b · 14c ^ 15 ^ 16 ^
SP1: - -
SP2: - - -
SP3: - - - -
SP4: - - - - - - - -
SP5: - - - - - - - - - -
SP6: - - - - - -
SP7: -
SP8: - - - - - -
SP9: - - - - - - - - -
SP10: - - - -
SP11:
SP12: -
SP13:
SP14: - -
SP15:

ExUns: 17 ^ 18a · 18b ^ 19a · 19b ^ 20 ^ 21a · 21b · 21c ^ 22a · 22b · 22c ^ 23 ^ 24 ^ 25a · 25b · 25c
SP1: - -
SP2: - -
SP3: - -
SP4:
SP5:
SP6:
SP7: - - -
SP8:
SP9:
SP10:
SP11: -
SP12:
SP13:
SP14:
SP15:

Relevant External Links for CSDE1 Gene

GeneLoc Exon Structure for
CSDE1

Expression for CSDE1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CSDE1 Gene

mRNA differential expression in normal tissues according to GTEx for CSDE1 Gene

This gene is overexpressed in Muscle - Skeletal (x6.9).

Protein differential expression in normal tissues from HIPED for CSDE1 Gene

This gene is overexpressed in Lymph node (11.0) and Peripheral blood mononuclear cells (8.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CSDE1 Gene



Protein tissue co-expression partners for CSDE1 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for CSDE1

SOURCE GeneReport for Unigene cluster for CSDE1 Gene:

Hs.69855

Evidence on tissue expression from TISSUES for CSDE1 Gene

  • Nervous system(5)
  • Liver(4.7)
  • Skin(4.4)
  • Muscle(4.2)
  • Intestine(4)
  • Lung(4)
  • Eye(3.9)
  • Kidney(3.9)
  • Pancreas(3.3)
  • Stomach(3.2)
  • Heart(2.8)
  • Spleen(2.6)
  • Thyroid gland(2.6)
  • Blood(2.4)
  • Bone(2.4)
  • Bone marrow(2.1)
  • Gall bladder(2.1)
  • Adrenal gland(2)
  • Lymph node(2)
genes like me logo Genes that share expression patterns with CSDE1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CSDE1 Gene

Orthologs for CSDE1 Gene

This gene was present in the common ancestor of animals.

Orthologs for CSDE1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CSDE1 31 30
  • 99.84 (n)
OneToOne
dog
(Canis familiaris)
Mammalia CSDE1 31 30
  • 96.37 (n)
OneToOne
cow
(Bos Taurus)
Mammalia CSDE1 31 30
  • 96.05 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Csde1 17 31 30
  • 94.57 (n)
rat
(Rattus norvegicus)
Mammalia LOC100364335 30
  • 94.44 (n)
oppossum
(Monodelphis domestica)
Mammalia CSDE1 31
  • 89 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CSDE1 31
  • 78 (a)
OneToOne
chicken
(Gallus gallus)
Aves CSDE1 31 30
  • 85.43 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CSDE1 31
  • 92 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia csde1 30
  • 76.98 (n)
Str.5856 30
African clawed frog
(Xenopus laevis)
Amphibia Xl.4677 30
zebrafish
(Danio rerio)
Actinopterygii csde1 31 31 30
  • 71.57 (n)
OneToMany
CU571336.1 31
  • 6 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta Unr 31 30
  • 53.2 (n)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP004937 30
  • 52.5 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.8024 31
  • 40 (a)
OneToOne
Species where no ortholog for CSDE1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CSDE1 Gene

ENSEMBL:
Gene Tree for CSDE1 (if available)
TreeFam:
Gene Tree for CSDE1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CSDE1: view image

Paralogs for CSDE1 Gene

(3) SIMAP similar genes for CSDE1 Gene using alignment to 8 proteins:

  • CSDE1_HUMAN
  • E9PJK7_HUMAN
  • E9PKN4_HUMAN
  • E9PLD4_HUMAN
  • E9PLT0_HUMAN
  • E9PNG3_HUMAN
  • G5E9Q2_HUMAN
  • Q8WU01_HUMAN
genes like me logo Genes that share paralogs with CSDE1: view

No data available for Paralogs for CSDE1 Gene

Variants for CSDE1 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for CSDE1 Gene

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
715551 Benign: not provided 114,720,626(-) T/C SYNONYMOUS_VARIANT
721068 Benign: not provided 114,718,221(-) G/T INTRON_VARIANT
725517 Benign: not provided 114,719,746(-) A/G INTRON_VARIANT
730389 Benign: not provided 114,719,698(-) A/G SYNONYMOUS_VARIANT
786855 Benign: not provided 114,736,778(-) A/G SYNONYMOUS_VARIANT

Additional dbSNP identifiers (rs#s) for CSDE1 Gene

Structural Variations from Database of Genomic Variants (DGV) for CSDE1 Gene

Variant ID Type Subtype PubMed ID
esv28734 CNV loss 19812545

Variation tolerance for CSDE1 Gene

Residual Variation Intolerance Score: 5.71% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.98; 20.17% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CSDE1 Gene

Human Gene Mutation Database (HGMD)
CSDE1
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CSDE1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CSDE1 Gene

Disorders for CSDE1 Gene

MalaCards: The human disease database

(4) MalaCards diseases for CSDE1 Gene - From: DISEASES

Disorder Aliases PubMed IDs
nonparalytic poliomyelitis
  • acute nonparalytic poliomyelitis
bulbar polio
  • bulbar poliomyelitis
paralytic poliomyelitis
  • poliomyelitis, paralytic
diamond-blackfan anemia
  • diamond-blackfan anemia 1
- elite association - COSMIC cancer census association via MalaCards
Search CSDE1 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for CSDE1

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 CSDE1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CSDE1 Gene

Publications for CSDE1 Gene

  1. UNR, a new partner of poly(A)-binding protein, plays a key role in translationally coupled mRNA turnover mediated by the c-fos major coding-region determinant. (PMID: 15314026) Chang TC … Shyu AB (Genes & development 2004) 3 4 23 54
  2. A mechanism for translationally coupled mRNA turnover: interaction between the poly(A) tail and a c-fos RNA coding determinant via a protein complex. (PMID: 11051545) Grosset C … Shyu AB (Cell 2000) 3 4 23 54
  3. unr, a cellular cytoplasmic RNA-binding protein with five cold-shock domains, is required for internal initiation of translation of human rhinovirus RNA. (PMID: 10049359) Hunt SL … Jackson RJ (Genes & development 1999) 3 4 23 54
  4. Prediction of the coding sequences of unidentified human genes. XII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10048485) Nagase T … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 1998) 2 3 4 54
  5. Exon skipping in the expression of the gene immediately upstream of N-ras (unr/NRU). (PMID: 8439573) Boussadia O … Dautry F (Biochimica et biophysica acta 1993) 3 4 23 54

Products for CSDE1 Gene

Sources for CSDE1 Gene