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CSDE1 cold shock domain containing E1 [ Sus scrofa (pig) ]

Gene ID: 100739316, updated on 17-Aug-2024

Summary

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Official Symbol
CSDE1provided by VGNC
Official Full Name
cold shock domain containing E1provided by VGNC
Primary source
VGNC:VGNC:87029
See related
Ensembl:ENSSSCG00000006752
Gene type
protein coding
RefSeq status
MODEL
Organism
Sus scrofa
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
Expression
Ubiquitous expression in psoas major muscle (RPKM 144.8), longissimus dorsi muscle (RPKM 123.4) and 8 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 4
Exon count:
22
Annotation release Status Assembly Chr Location
106 current Sscrofa11.1 (GCF_000003025.6) 4 NC_010446.5 (105804512..105845735)
105 previous assembly Sscrofa10.2 (GCF_000003025.5) 4 NC_010446.4 (115990371..116034488)

Chromosome 4 - NC_010446.5Genomic Context describing neighboring genes Neighboring gene heterogeneous nuclear ribonucleoprotein A3 pseudogene Neighboring gene suppressor of IKBKE 1 Neighboring gene NRAS proto-oncogene, GTPase Neighboring gene adenosine monophosphate deaminase 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Transcriptome data used for gene annotation Transcriptome data used for gene annotation
  • Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
  • BioProject: PRJNA311523
  • Publication: PMID 27646534
  • Analysis date: Thu Dec 14 17:10:49 2017

Bibliography

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GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
cold shock domain-containing protein E1
Names
cold shock domain containing E1, RNA-binding

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Sus scrofa Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference Sscrofa11.1 Primary Assembly

Genomic

  1. NC_010446.5 Reference Sscrofa11.1 Primary Assembly

    Range
    105804512..105845735
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_003481484.4 → XP_003481532.1  cold shock domain-containing protein E1 isoform X1

    UniProtKB/TrEMBL
    A0A287B2T9, A0A4X1SYQ9, A0A8D1QD54
    Related
    ENSSSCP00000050736.1, ENSSSCT00000064093.3
    Conserved Domains (4) summary
    smart00357
    Location:396 → 459
    CSP; Cold shock protein domain
    pfam00313
    Location:232 → 294
    CSD; 'Cold-shock' DNA-binding domain
    pfam12901
    Location:818 → 833
    SUZ-C; SUZ-C motif
    cl25438
    Location:231 → 404
    RNB; RNB domain

  2. XM_005655415.3 → XP_005655472.1  cold shock domain-containing protein E1 isoform X2

    UniProtKB/TrEMBL
    A0A8D1U1C4
    Related
    ENSSSCP00000057604.3, ENSSSCT00000044302.3
    Conserved Domains (4) summary
    smart00357
    Location:365 → 428
    CSP; Cold shock protein domain
    pfam00313
    Location:201 → 263
    CSD; 'Cold-shock' DNA-binding domain
    pfam12901
    Location:787 → 803
    SUZ-C; SUZ-C motif
    cl09927
    Location:72 → 136
    S1_like; S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. ...

  3. XM_005655416.3 → XP_005655473.1  cold shock domain-containing protein E1 isoform X3

    UniProtKB/TrEMBL
    A0A8D1H8A2, A0A8D1YCF7
    Conserved Domains (3) summary
    smart00357
    Location:350 → 413
    CSP; Cold shock protein domain
    pfam00313
    Location:186 → 248
    CSD; 'Cold-shock' DNA-binding domain
    pfam12901
    Location:772 → 788
    SUZ-C; SUZ-C motif

  4. XM_005655417.3 → XP_005655474.1  cold shock domain-containing protein E1 isoform X4

    UniProtKB/TrEMBL
    A0A4X1SYH9, A0A8D1QNR2
    Related
    ENSSSCP00000053136.2, ENSSSCT00000048448.3
    Conserved Domains (5) summary
    smart00357
    Location:319 → 382
    CSP; Cold shock protein domain
    pfam00313
    Location:155 → 217
    CSD; 'Cold-shock' DNA-binding domain
    pfam12901
    Location:741 → 756
    SUZ-C; SUZ-C motif
    cl09927
    Location:490 → 551
    S1_like; S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. ...
    cl25438
    Location:154 → 327
    RNB; RNB domain

  5. XM_021090005.1 → XP_020945664.1  cold shock domain-containing protein E1 isoform X4

    UniProtKB/TrEMBL
    A0A4X1SYH9, A0A8D1QNR2
    Conserved Domains (5) summary
    smart00357
    Location:319 → 382
    CSP; Cold shock protein domain
    pfam00313
    Location:155 → 217
    CSD; 'Cold-shock' DNA-binding domain
    pfam12901
    Location:741 → 756
    SUZ-C; SUZ-C motif
    cl09927
    Location:490 → 551
    S1_like; S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. ...
    cl25438
    Location:154 → 327
    RNB; RNB domain

  6. XM_021090004.1 → XP_020945663.1  cold shock domain-containing protein E1 isoform X1

    UniProtKB/TrEMBL
    A0A287B2T9, A0A4X1SYQ9, A0A8D1QD54
    Conserved Domains (4) summary
    smart00357
    Location:396 → 459
    CSP; Cold shock protein domain
    pfam00313
    Location:232 → 294
    CSD; 'Cold-shock' DNA-binding domain
    pfam12901
    Location:818 → 833
    SUZ-C; SUZ-C motif
    cl25438
    Location:231 → 404
    RNB; RNB domain
Nucleotide Protein
Heading Accession and Version

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