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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
  • N-Ras Upstream Gene Protein 3 4
  • Upstream Of NRAS 2 3
  • D1S155E 3 4
  • UNR 3 4
  • Cold Shock Domain-Containing Protein E1 3
  • 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. Among its related pathways are Validated targets of C-MYC transcriptional repression. GO annotations related to this gene include nucleic acid binding and poly(A) RNA binding.

UniProtKB/Swiss-Prot 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

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CSDE1 Gene

Genomics for CSDE1 Gene

Regulatory Elements for CSDE1 Gene

Enhancers for CSDE1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01F114715 0.4 ENCODE 10.7 +42.2 42235 2.4 HDGF ARNT CREB3L1 MLX WRNIP1 ARID4B SIN3A YBX1 DMAP1 YY1 RSBN1 TRIM33 OLFML3 SIKE1 NGF DENND2C CSDE1 ENSG00000228035 TSPAN2 NRAS
GH01F114712 0.2 ENCODE 10.7 +45.4 45403 1.0 ZNF121 POLR2A DENND2C CSDE1 NRAS RN7SL432P
GH01F114504 1.1 Ensembl ENCODE 9.9 +253.3 253290 1.6 HDAC1 L3MBTL2 MAFG CBX1 ZNF316 MLLT1 MYC SPI1 CSDE1 AMPD1 TRIM33 ENSG00000201114
GH01F114754 0.8 ENCODE 0.8 +1.9 1891 4.8 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 SIKE1 OLFML3 RSBN1 TRIM33 NGF ENSG00000228035 TSPAN2 CSDE1 GC01M114751 PIR52575
GH01F114750 1.1 Ensembl ENCODE 0.4 +7.7 7716 0.6 SCRT1 SCRT2 WRNIP1 ZBTB8A TRIM28 SIKE1 GC01M114751 PIR52575 CSDE1
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around CSDE1 on UCSC Golden Path with GeneCards custom track

Promoters for CSDE1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000543058 1576 3001 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 ARID4B SIN3A FEZF1 DMAP1 ZNF2

Genomic Location for CSDE1 Gene

Chromosome:
1
Start:
114,716,913 bp from pter
End:
114,758,676 bp from pter
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 Lys 32, Lys 166, Lys 207, Lys 239, Lys 295, Lys 682, Lys 729, and Lys 758
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for CSDE1 Gene

Domains & Families for CSDE1 Gene

Suggested Antigen Peptide Sequences for CSDE1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O75534

UniProtKB/Swiss-Prot:

CSDE1_HUMAN :
  • Contains 9 CSD (cold-shock) domains.
Domain:
  • Contains 9 CSD (cold-shock) domains.
genes like me logo Genes that share domains with CSDE1: view

No data available for Gene Families 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.

Gene Ontology (GO) - Molecular Function for CSDE1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0003723 RNA binding IEA --
GO:0005515 protein binding IPI 25416956
GO:0044822 poly(A) RNA binding IDA 22658674
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

miRNA for CSDE1 Gene

miRTarBase miRNAs that target CSDE1

Flow Cytometry 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
Jensen Localization Image for CSDE1 Gene COMPARTMENTS Subcellular localization image for CSDE1 gene
Compartment Confidence
golgi apparatus 5
plasma membrane 5
cytosol 4
nucleus 3
mitochondrion 2

Gene Ontology (GO) - Cellular Components for CSDE1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA,IDA --
GO:0005743 mitochondrial inner membrane IEA --
GO:0005794 Golgi apparatus 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:0006355 regulation of transcription, DNA-templated IEA --
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

Unigene Clusters for CSDE1 Gene

Cold shock domain containing E1, RNA-binding:
Representative Sequences:

Flow Cytometry 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
ECgene alternative splicing isoforms for
CSDE1

Expression for CSDE1 Gene

mRNA expression in normal human tissues 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, PaxDb, MaxQB, and MOPED for CSDE1 Gene



Protein tissue co-expression partners for CSDE1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CSDE1 Gene:

CSDE1

SOURCE GeneReport for Unigene cluster for CSDE1 Gene:

Hs.69855
genes like me logo Genes that share expression patterns with CSDE1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA Expression by UniProt/SwissProt 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 34 35
  • 99.84 (n)
dog
(Canis familiaris)
Mammalia CSDE1 34 35
  • 96.37 (n)
cow
(Bos Taurus)
Mammalia CSDE1 34 35
  • 96.05 (n)
mouse
(Mus musculus)
Mammalia Csde1 34 16 35
  • 94.57 (n)
rat
(Rattus norvegicus)
Mammalia LOC100364335 34
  • 94.44 (n)
oppossum
(Monodelphis domestica)
Mammalia CSDE1 35
  • 89 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CSDE1 35
  • 78 (a)
OneToOne
chicken
(Gallus gallus)
Aves CSDE1 34 35
  • 85.43 (n)
lizard
(Anolis carolinensis)
Reptilia CSDE1 35
  • 92 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia csde1 34
  • 76.98 (n)
Str.5856 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.4677 34
zebrafish
(Danio rerio)
Actinopterygii csde1 34 35 35
  • 71.57 (n)
CU571336.1 35
  • 6 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta Unr 34 35
  • 53.2 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP004937 34
  • 52.5 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.8024 35
  • 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)

Paralogs for CSDE1 Gene

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

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 from dbSNP and Humsavar for CSDE1 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs61758211 Benign 114,716,690(-) TCCTA(A/G)ATCTG intron-variant, utr-variant-5-prime
rs10489525 -- 114,721,064(+) CCCAA(A/G)TTCAC intron-variant
rs10489526 -- 114,750,906(+) AGCAT(A/C)AAGTG intron-variant
rs1065634 -- 114,717,147(-) TGGCC(A/G)TATAC upstream-variant-2KB, utr-variant-3-prime
rs10858051 -- 114,740,490(+) TCTGA(A/G)ACAAC intron-variant

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)

Relevant External Links for CSDE1 Gene

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

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

Disorders for CSDE1 Gene

Relevant External Links for CSDE1

Genetic Association Database (GAD)
CSDE1
Human Genome Epidemiology (HuGE) Navigator
CSDE1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CSDE1

No disorders were found for CSDE1 Gene.

No data available for MalaCards , 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 T.-C. … Shyu A.-B. (Genes Dev. 2004) 3 4 22 64
  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 A.-B. (Cell 2000) 3 4 22 64
  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 S.L. … Jackson R.J. (Genes Dev. 1999) 3 4 22 64
  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 Res. 1998) 2 3 4 64
  5. Exon skipping in the expression of the gene immediately upstream of N-ras (unr/NRU). (PMID: 8439573) Boussadia O. … Dautry F. (Biochim. Biophys. Acta 1993) 3 4 22 64

Products for CSDE1 Gene

Sources for CSDE1 Gene

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