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    Sned1 sushi, nidogen and EGF-like domains 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 316638, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Sned1provided by RGD
    Official Full Name
    sushi, nidogen and EGF-like domains 1provided by RGD
    Primary source
    RGD:1566079
    See related
    Ensembl:ENSRNOG00000023548 AllianceGenome:RGD:1566079
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    IRE-BP1
    Summary
    Predicted to enable Notch binding activity. Predicted to be involved in cell-matrix adhesion. Predicted to be located in extracellular region. Orthologous to human SNED1 (sushi, nidogen and EGF like domains 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Lung (RPKM 115.6), Kidney (RPKM 96.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Sned1 in Genome Data Viewer
    Location:
    9q36
    Exon count:
    31
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (101221497..101281401)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (93774087..93834003)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (100380487..100439125)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120094749 Neighboring gene mab-21 like 4 Neighboring gene ciliary rootlet coiled-coil, rootletin family member 2 Neighboring gene uncharacterized LOC134480612 Neighboring gene ubiquitin-associated domain-containing protein 1 pseudogene Neighboring gene mitochondrial transcription termination factor 4

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Transgenic expression of insulin-response element binding protein-1 in beta-cells reproduces type 2 diabetes. Villafuerte BC, et al. Endocrinology, 2009 Jun. PMID 19213832, Free PMC Article
    2. Regulation of insulin-response element binding protein-1 in obesity and diabetes: potential role in impaired insulin-induced gene transcription. Chahal J, et al. Endocrinology, 2008 Oct. PMID 18566119, Free PMC Article
    3. An insulin-response element-binding protein that ameliorates hyperglycemia in diabetes. Villafuerte BC, et al. J Biol Chem, 2005 May 20. PMID 15753094
    4. Insulin-response element-binding protein 1: a novel Akt substrate involved in transcriptional action of insulin. Villafuerte BC, et al. J Biol Chem, 2004 Aug 27. PMID 15194686
    5. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. Prunotto M, et al. J Proteomics, 2013 Apr 26. PMID 23376485

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Increased gene transcription mediated through IRE-BP1 may contribute to beta-cell dysfunction in insulin resistance, and allow for the hypothesis that IRE-BP1 plays a role in the pathophysiology of type 2 diabetes.
      Title: Transgenic expression of insulin-response element binding protein-1 in beta-cells reproduces type 2 diabetes.
    2. study supports the notion that IRE-BP1 may be relevant to the action of insulin in vivo and may play a role in the development of insulin resistance and diabetes
      Title: Regulation of insulin-response element binding protein-1 in obesity and diabetes: potential role in impaired insulin-induced gene transcription.
    3. stable constitutive expression of IRE-BP1 enhanced glucose transporter expression, glucose uptake, and glycogen accumulation
      Title: An insulin-response element-binding protein that ameliorates hyperglycemia in diabetes.
    4. identified a novel transcription factor,insulin-response element-binding protein 1, that binds and transactivates the insulin-response elements of the insulin-like growth factor-binding protein-3 and other insulin responsive genes
      Title: Insulin-response element-binding protein 1: a novel Akt substrate involved in transcriptional action of insulin.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables Notch binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell-matrix adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in extracellular matrix IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in extracellular matrix ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    sushi, nidogen and EGF-like domain-containing protein 1
    Names
    insulin-responsive sequence DNA-binding protein 1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001413841.2 → NP_001400770.1  sushi, nidogen and EGF-like domain-containing protein 1 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/Swiss-Prot
      Q336F3, Q5ZQU0
      Related
      ENSRNOP00000022290.7, ENSRNOT00000022290.7

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086027.1 Reference GRCr8

      Range
      101221497..101281401
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039083766.2 → XP_038939694.1  sushi, nidogen and EGF-like domain-containing protein 1 isoform X2

      UniProtKB/TrEMBL
      A6JQY0, D3ZNR4
      Conserved Domains (5) summary
      cd00033
      Location:698 → 752
      CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
      smart00539
      Location:104 → 260
      NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
      cd00054
      Location:311 → 347
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      cd00063
      Location:1205 → 1297
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00041
      Location:1009 → 1089
      fn3; Fibronectin type III domain

    2. XM_063267325.1 → XP_063123395.1  sushi, nidogen and EGF-like domain-containing protein 1 isoform X4

    3. XM_039083769.2 → XP_038939697.1  sushi, nidogen and EGF-like domain-containing protein 1 isoform X5

      UniProtKB/TrEMBL
      A6JQY1
      Conserved Domains (3) summary
      cd00033
      Location:698 → 752
      CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
      smart00539
      Location:104 → 260
      NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
      cd00054
      Location:311 → 347
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

    4. XM_063267326.1 → XP_063123396.1  sushi, nidogen and EGF-like domain-containing protein 1 isoform X6

    5. XM_039083765.2 → XP_038939693.1  sushi, nidogen and EGF-like domain-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      A6JQY0, D3ZNR4
      Conserved Domains (5) summary
      cd00033
      Location:698 → 752
      CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
      smart00539
      Location:104 → 260
      NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
      cd00054
      Location:311 → 347
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      cd00063
      Location:1205 → 1297
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00041
      Location:1009 → 1089
      fn3; Fibronectin type III domain

    6. XM_039083768.2 → XP_038939696.1  sushi, nidogen and EGF-like domain-containing protein 1 isoform X3

      UniProtKB/TrEMBL
      A6JQY0, D3ZNR4
      Conserved Domains (5) summary
      cd00033
      Location:698 → 752
      CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
      smart00539
      Location:104 → 260
      NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
      cd00054
      Location:311 → 347
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      cd00063
      Location:1066 → 1158
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00041
      Location:870 → 950
      fn3; Fibronectin type III domain

    RNA

    1. XR_005488918.2 RNA Sequence

    2. XR_005488919.2 RNA Sequence

    3. XR_005488921.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5ZQU0.2 GenPept UniProtKB/Swiss-Prot:Q5ZQU0

    Gene LinkOut

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