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Scyl3 SCY1-like 3 (S. cerevisiae) [ Mus musculus (house mouse) ]

Gene ID: 240880, updated on 18-Sep-2024

Summary

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Official Symbol
Scyl3provided by MGI
Official Full Name
SCY1-like 3 (S. cerevisiae)provided by MGI
Primary source
MGI:MGI:1921385
See related
Ensembl:ENSMUSG00000026584 AllianceGenome:MGI:1921385
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Pace1; 6030457O16; 1200016D23Rik
Summary
Enables identical protein binding activity. Acts upstream of or within cellular protein localization; inflammatory response; and neuron differentiation. Located in Golgi membrane. Is expressed in retina inner nuclear layer and retina outer nuclear layer. Orthologous to human SCYL3 (SCY1 like pseudokinase 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in thymus adult (RPKM 4.3), CNS E11.5 (RPKM 4.3) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Scyl3 in Genome Data Viewer
Location:
1 H2.1- H2.2; 1 71.23 cM
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (163756669..163782695)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (163929100..163955126)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_02857 Neighboring gene GC-rich promoter binding protein 1-like 1 pseudogene Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:165709472-165709665 Neighboring gene STARR-seq mESC enhancer starr_02858 Neighboring gene predicted gene, 51663 Neighboring gene kinesin-associated protein 3 Neighboring gene STARR-seq mESC enhancer starr_02859 Neighboring gene FIGNL1 interacting regulator of recombination and mitosis Neighboring gene STARR-positive B cell enhancer ABC_E2015 Neighboring gene STARR-seq mESC enhancer starr_02860 Neighboring gene methyltransferase like 18 Neighboring gene selectin, endothelial cell

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Overlapping Role of SCYL1 and SCYL3 in Maintaining Motor Neuron Viability. Kuliyev E, et al. J Neurosci, 2018 Mar 7. PMID 29437892, Free PMC Article
  2. Variegated gene expression caused by cell-specific long-range DNA interactions. Noordermeer D, et al. Nat Cell Biol, 2011 Jun 26. PMID 21706023, Free PMC Article
  3. Genomic analysis of mouse retinal development. Blackshaw S, et al. PLoS Biol, 2004 Sep. PMID 15226823, Free PMC Article
  4. BioID screening of biotinylation sites using the avidin-like protein Tamavidin 2-REV identifies global interactors of stimulator of interferon genes (STING). Motani K, et al. J Biol Chem, 2020 Aug 7. PMID 32554809, Free PMC Article
  5. EUCOMM--the European conditional mouse mutagenesis program. Friedel RH, et al. Brief Funct Genomic Proteomic, 2007 Sep. PMID 17967808

See all (17) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables identical protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein kinase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within inflammatory response IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within neuron development IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within protein localization IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in protein phosphorylation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within spinal cord motor neuron differentiation IGI
Inferred from Genetic Interaction
more info
 PubMed 
Component Evidence Code Pubs
located_in Golgi apparatus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in Golgi apparatus ISO
Inferred from Sequence Orthology
more info
  
located_in Golgi membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
  
located_in endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
  
located_in lamellipodium IEA
Inferred from Electronic Annotation
more info
  
located_in lamellipodium ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
protein-associating with the carboxyl-terminal domain of ezrin
Names
SCY1-like protein 3
ezrin-binding partner PACE-1
ezrin-binding protein PACE-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_001286002.1 → NP_001272931.1  protein-associating with the carboxyl-terminal domain of ezrin isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. The encoded protein (isoform 2) is shorter than isoform 1.
    Source sequence(s)
    AK162937, BC043085, BC066800
    Consensus CDS
    CCDS69967.1
    UniProtKB/Swiss-Prot
    Q9DBQ7
    Related
    ENSMUSP00000125735.2, ENSMUST00000161908.8
    Conserved Domains (3) summary
    pfam00069
    Location:26 → 245
    Pkinase; Protein kinase domain
    sd00044
    Location:256 → 283
    HEAT; HEAT repeat [structural motif]
    cl21453
    Location:9 → 247
    PKc_like; Protein Kinases, catalytic domain

  2. NM_001286003.1 → NP_001272932.1  protein-associating with the carboxyl-terminal domain of ezrin isoform 3

    See identical proteins and their annotated locations for NP_001272932.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate 5' structure and initiates translation at a downstream start codon, compared to variant 1. The encoded protein (isoform 3) has a shorter N-terminus than isoform 1. Both variants 3 and 4 encode the same isoform.
    Source sequence(s)
    AK044100, BB653492, BC043085
    UniProtKB/Swiss-Prot
    Q9DBQ7
    Conserved Domains (1) summary
    sd00044
    Location:28 → 55
    HEAT; HEAT repeat [structural motif]

  3. NM_001357426.1 → NP_001344355.1  protein-associating with the carboxyl-terminal domain of ezrin isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses an alternate 5' structure and initiates translation at a downstream start codon, compared to variant 1. The encoded protein (isoform 3) has a shorter N-terminus than isoform 1. Both variants 3 and 4 encode the same isoform.
    Source sequence(s)
    AC158964
    Conserved Domains (1) summary
    sd00044
    Location:28 → 55
    HEAT; HEAT repeat [structural motif]

  4. NM_028776.5 → NP_083052.1  protein-associating with the carboxyl-terminal domain of ezrin isoform 1

    See identical proteins and their annotated locations for NP_083052.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    BB653492, BC043085, BC066800
    Consensus CDS
    CCDS15430.1
    UniProtKB/Swiss-Prot
    Q3TRA7, Q6NY01, Q8BQC9, Q8BRJ1, Q9DBQ7
    Related
    ENSMUSP00000027876.5, ENSMUST00000027876.11
    Conserved Domains (3) summary
    pfam00069
    Location:26 → 245
    Pkinase; Protein kinase domain
    sd00044
    Location:256 → 283
    HEAT; HEAT repeat [structural motif]
    cl21453
    Location:9 → 247
    PKc_like; Protein Kinases, catalytic domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000067.7 Reference GRCm39 C57BL/6J

    Range
    163756669..163782695
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006496849.2 → XP_006496912.1  protein-associating with the carboxyl-terminal domain of ezrin isoform X6

    See identical proteins and their annotated locations for XP_006496912.1

    UniProtKB/Swiss-Prot
    Q9DBQ7
    Conserved Domains (1) summary
    sd00044
    Location:28 → 55
    HEAT; HEAT repeat [structural motif]

  2. XM_006496845.3 → XP_006496908.1  protein-associating with the carboxyl-terminal domain of ezrin isoform X1

    Conserved Domains (1) summary
    cl21453
    Location:9 → 246
    PKc_like; Protein Kinases, catalytic domain

  3. XM_006496846.4 → XP_006496909.1  protein-associating with the carboxyl-terminal domain of ezrin isoform X2

    Conserved Domains (1) summary
    cl21453
    Location:9 → 209
    PKc_like; Protein Kinases, catalytic domain

  4. XM_030254034.2 → XP_030109894.1  protein-associating with the carboxyl-terminal domain of ezrin isoform X6

    Conserved Domains (1) summary
    sd00044
    Location:28 → 55
    HEAT; HEAT repeat [structural motif]

  5. XM_036164878.1 → XP_036020771.1  protein-associating with the carboxyl-terminal domain of ezrin isoform X5

    Conserved Domains (1) summary
    sd00044
    Location:32 → 59
    HEAT; HEAT repeat [structural motif]

  6. XM_030254035.2 → XP_030109895.1  protein-associating with the carboxyl-terminal domain of ezrin isoform X6

    Conserved Domains (1) summary
    sd00044
    Location:28 → 55
    HEAT; HEAT repeat [structural motif]

  7. XM_006496847.4 → XP_006496910.1  protein-associating with the carboxyl-terminal domain of ezrin isoform X3

    Conserved Domains (2) summary
    sd00044
    Location:114 → 141
    HEAT; HEAT repeat [structural motif]
    cl21453
    Location:1 → 105
    PKc_like; Protein Kinases, catalytic domain

  8. XM_036164892.1 → XP_036020785.1  protein-associating with the carboxyl-terminal domain of ezrin isoform X6

    Conserved Domains (1) summary
    sd00044
    Location:28 → 55
    HEAT; HEAT repeat [structural motif]

  9. XM_036164875.1 → XP_036020768.1  protein-associating with the carboxyl-terminal domain of ezrin isoform X4

    Conserved Domains (2) summary
    sd00044
    Location:83 → 110
    HEAT; HEAT repeat [structural motif]
    cl21453
    Location:1 → 74
    PKc_like; Protein Kinases, catalytic domain

  10. XM_036164893.1 → XP_036020786.1  protein-associating with the carboxyl-terminal domain of ezrin isoform X7

    Conserved Domains (1) summary
    sd00044
    Location:40 → 65
    HEAT; HEAT repeat [structural motif]
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9DBQ7.3 GenPept UniProtKB/Swiss-Prot:Q9DBQ7

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