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Clvs1 clavesin 1 [ Mus musculus (house mouse) ]

Gene ID: 74438, updated on 1-Mar-2024

Summary

Official Symbol
Clvs1provided by MGI
Official Full Name
clavesin 1provided by MGI
Primary source
MGI:MGI:1921688
See related
Ensembl:ENSMUSG00000041216 AllianceGenome:MGI:1921688
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
Clvl1; Rlbp1l1; 4933402J24Rik
Summary
Predicted to enable phosphatidylinositol-3,5-bisphosphate binding activity. Predicted to be involved in lysosome organization. Predicted to be located in Golgi apparatus; cytoplasmic vesicle; and membrane. Predicted to be active in clathrin-coated vesicle; endosome; and trans-Golgi network. Is expressed in several structures, including alimentary system; brain; eye; genitourinary system; and spinal cord. Orthologous to human CLVS1 (clavesin 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in cerebellum adult (RPKM 9.8), CNS E14 (RPKM 5.9) and 18 other tissues See more
Orthologs
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Genomic context

See Clvs1 in Genome Data Viewer
Location:
4 A1; 4 4.07 cM
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (9144753..9451691)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (9144745..9451691)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 54233 Neighboring gene predicted gene, 50597 Neighboring gene predicted gene, 34288 Neighboring gene STARR-seq mESC enhancer starr_09535 Neighboring gene predicted gene, 23423 Neighboring gene STARR-seq mESC enhancer starr_09536 Neighboring gene STARR-seq mESC enhancer starr_09537 Neighboring gene predicted gene 11816 Neighboring gene predicted gene, 57727 Neighboring gene aspartate-beta-hydroxylase Neighboring gene STARR-seq mESC enhancer starr_09538 Neighboring gene NIMA (never in mitosis gene a)-related expressed kinase 2 pseudogene Neighboring gene STARR-positive B cell enhancer mm9_chr4:9557799-9558100 Neighboring gene STARR-positive B cell enhancer ABC_E2685 Neighboring gene STARR-seq mESC enhancer starr_09540 Neighboring gene predicted gene, 24152

Genomic regions, transcripts, and products

Expression

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

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (2) 

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables lipid binding IEA
Inferred from Electronic Annotation
more info
 
enables phosphatidylinositol bisphosphate binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables phosphatidylinositol-3,5-bisphosphate binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in lysosome organization IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in lysosome organization ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in Golgi apparatus IEA
Inferred from Electronic Annotation
more info
 
is_active_in clathrin-coated vesicle IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in clathrin-coated vesicle ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasmic vesicle IEA
Inferred from Electronic Annotation
more info
 
is_active_in endosome IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in endosome ISO
Inferred from Sequence Orthology
more info
 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
is_active_in trans-Golgi network IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in trans-Golgi network ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
clavesin-1
Names
retinaldehyde-binding protein 1-like 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_001355183.1NP_001342112.1  clavesin-1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AK034888, AK084350, AL844180, BC100556
    Consensus CDS
    CCDS17957.1
    UniProtKB/Swiss-Prot
    Q3UWV3, Q497H3, Q8BJE8, Q8BXX0, Q9D4C9
    Conserved Domains (2) summary
    smart01100
    Location:5197
    CRAL_TRIO_N; CRAL/TRIO, N-terminal domain
    pfam00650
    Location:125274
    CRAL_TRIO; CRAL/TRIO domain
  2. NM_028940.2NP_083216.1  clavesin-1

    See identical proteins and their annotated locations for NP_083216.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the shorter transcript. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AK083810, AK084350, BC100556
    Consensus CDS
    CCDS17957.1
    UniProtKB/Swiss-Prot
    Q3UWV3, Q497H3, Q8BJE8, Q8BXX0, Q9D4C9
    Related
    ENSMUSP00000035649.8, ENSMUST00000038841.14
    Conserved Domains (2) summary
    smart01100
    Location:5197
    CRAL_TRIO_N; CRAL/TRIO, N-terminal domain
    pfam00650
    Location:125274
    CRAL_TRIO; CRAL/TRIO 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_000070.7 Reference GRCm39 C57BL/6J

    Range
    9144753..9451691
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011250126.4XP_011248428.1  clavesin-1 isoform X2

    Conserved Domains (1) summary
    cd00170
    Location:100220
    SEC14; Sec14p-like lipid-binding domain. Found in secretory proteins, such as S. cerevisiae phosphatidylinositol transfer protein (Sec14p), and in lipid regulated proteins such as RhoGAPs, RhoGEFs and neurofibromin (NF1). SEC14 domain of Dbl is known to ...
  2. XM_030253852.2XP_030109712.1  clavesin-1 isoform X5

    Conserved Domains (1) summary
    smart01100
    Location:5197
    CRAL_TRIO_N; CRAL/TRIO, N-terminal domain
  3. XM_006538321.4XP_006538384.1  clavesin-1 isoform X3

    Conserved Domains (1) summary
    cd00170
    Location:67187
    SEC14; Sec14p-like lipid-binding domain. Found in secretory proteins, such as S. cerevisiae phosphatidylinositol transfer protein (Sec14p), and in lipid regulated proteins such as RhoGAPs, RhoGEFs and neurofibromin (NF1). SEC14 domain of Dbl is known to ...
  4. XM_030253851.2XP_030109711.1  clavesin-1 isoform X1

    UniProtKB/Swiss-Prot
    Q3UWV3, Q497H3, Q8BJE8, Q8BXX0, Q9D4C9
    Conserved Domains (2) summary
    smart01100
    Location:5197
    CRAL_TRIO_N; CRAL/TRIO, N-terminal domain
    pfam00650
    Location:125274
    CRAL_TRIO; CRAL/TRIO domain
  5. XM_006538322.5XP_006538385.1  clavesin-1 isoform X4

    Conserved Domains (1) summary
    cd00170
    Location:4124
    SEC14; Sec14p-like lipid-binding domain. Found in secretory proteins, such as S. cerevisiae phosphatidylinositol transfer protein (Sec14p), and in lipid regulated proteins such as RhoGAPs, RhoGEFs and neurofibromin (NF1). SEC14 domain of Dbl is known to ...