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Susd1 sushi domain containing 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 298031, updated on 13-Apr-2024

Summary

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Official Symbol
Susd1provided by RGD
Official Full Name
sushi domain containing 1provided by RGD
Primary source
RGD:1306966
See related
Ensembl:ENSRNOG00000056819 AllianceGenome:RGD:1306966
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
Summary
Predicted to enable calcium ion binding activity. Orthologous to human SUSD1 (sushi domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Spleen (RPKM 29.2), Kidney (RPKM 24.6) and 8 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
5q24
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (78952781..79076121, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (74157653..74281171, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (76514780..76636486, complement)

Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene UDP-glucose ceramide glucosyltransferase Neighboring gene uncharacterized LOC102551074 Neighboring gene uncharacterized LOC134486940 Neighboring gene polypyrimidine tract binding protein 3 Neighboring gene small nucleolar RNA SNORA68 Neighboring gene heterogeneous nuclear ribonucleoprotein A1, pseudogene 39

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. Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Gibbs RA, et al. Nature, 2004 Apr 1. PMID 15057822

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
sushi domain-containing 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_001427255.1 → NP_001414184.1  sushi domain-containing protein 1 precursor

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000005

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_086023.1 Reference GRCr8

    Range
    78952781..79076121 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006238212.5 → XP_006238274.1  sushi domain-containing protein 1 isoform X3

    See identical proteins and their annotated locations for XP_006238274.1

    UniProtKB/TrEMBL
    A0A0G2JTG3
    Conserved Domains (3) summary
    cd00033
    Location:149 → 205
    CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
    smart00179
    Location:95 → 126
    EGF_CA; Calcium-binding EGF-like domain
    pfam12947
    Location:12 → 39
    EGF_3; EGF domain

  2. XM_039111047.2 → XP_038966975.1  sushi domain-containing protein 1 isoform X4

    UniProtKB/TrEMBL
    A0A0G2JTG3
    Conserved Domains (2) summary
    cd00033
    Location:146 → 202
    CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
    smart00179
    Location:92 → 123
    EGF_CA; Calcium-binding EGF-like domain

  3. XM_039111048.2 → XP_038966976.1  sushi domain-containing protein 1 isoform X6

    Conserved Domains (3) summary
    cd00033
    Location:131 → 186
    CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
    smart00179
    Location:76 → 114
    EGF_CA; Calcium-binding EGF-like domain
    pfam12947
    Location:45 → 72
    EGF_3; EGF domain

  4. XM_039111046.2 → XP_038966974.1  sushi domain-containing protein 1 isoform X2

    UniProtKB/TrEMBL
    A0A0G2JTG3
    Conserved Domains (3) summary
    cd00033
    Location:233 → 288
    CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
    smart00179
    Location:128 → 159
    EGF_CA; Calcium-binding EGF-like domain
    pfam12947
    Location:45 → 72
    EGF_3; EGF domain

  5. XM_006238211.5 → XP_006238273.1  sushi domain-containing protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006238273.1

    UniProtKB/TrEMBL
    A0A0G2JTG3
    Conserved Domains (3) summary
    cd00033
    Location:182 → 238
    CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
    smart00179
    Location:128 → 159
    EGF_CA; Calcium-binding EGF-like domain
    pfam12947
    Location:45 → 72
    EGF_3; EGF domain

  6. XM_006238213.5 → XP_006238275.1  sushi domain-containing protein 1 isoform X5

    See identical proteins and their annotated locations for XP_006238275.1

    Conserved Domains (3) summary
    cd00033
    Location:182 → 237
    CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
    smart00179
    Location:128 → 159
    EGF_CA; Calcium-binding EGF-like domain
    pfam12947
    Location:45 → 72
    EGF_3; EGF domain

  7. XM_039111049.2 → XP_038966977.1  sushi domain-containing protein 1 isoform X7

    Conserved Domains (2) summary
    cd00033
    Location:66 → 122
    CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
    smart00179
    Location:12 → 43
    EGF_CA; Calcium-binding EGF-like domain

  8. XM_039111050.2 → XP_038966978.1  sushi domain-containing protein 1 isoform X8

    Conserved Domains (3) summary
    cd00033
    Location:182 → 238
    CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
    smart00179
    Location:128 → 159
    EGF_CA; Calcium-binding EGF-like domain
    pfam12947
    Location:45 → 72
    EGF_3; EGF domain

  9. XM_039111051.2 → XP_038966979.1  sushi domain-containing protein 1 isoform X9

    Conserved Domains (3) summary
    cd00033
    Location:182 → 238
    CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
    smart00179
    Location:128 → 159
    EGF_CA; Calcium-binding EGF-like domain
    pfam12947
    Location:45 → 72
    EGF_3; EGF domain

  10. XM_039111052.2 → XP_038966980.1  sushi domain-containing protein 1 isoform X10

    Conserved Domains (3) summary
    cd00033
    Location:182 → 238
    CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
    smart00179
    Location:128 → 159
    EGF_CA; Calcium-binding EGF-like domain
    pfam12947
    Location:45 → 72
    EGF_3; EGF domain

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001106650.1: Suppressed sequence

    Description
    NM_001106650.1: This RefSeq was suppressed temporarily based on the calculation that the encoded protein was shorter than proteins from the putative ortholog from human: SUSD1 (GeneID:64420).
Nucleotide Protein Strain
Heading Accession and Version

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