Clvs1 clavesin 1 [Mus musculus (house mouse)] - Gene

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 early endosome 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, Nov 2024]
Expression: Broad expression in cerebellum adult (RPKM 9.8), CNS E14 (RPKM 5.9) and 18 other tissues See more
Orthologs: human all
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Genomic context

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_000070.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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Variation

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Alleles

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

Targeted (2)

General gene information

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Markers

D4Mit264 (e-PCR), detects polymorphism
- UniSTS:130053

fj48h10.x1 (e-PCR)
- UniSTS:199441

Rlbp1l1 (e-PCR), detects polymorphism
- UniSTS:472876

D4Mit317 (e-PCR), detects polymorphism
- UniSTS:130108

NoName (e-PCR)
- UniSTS:234865

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
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
enables phosphatidylinositol-3,5-bisphosphate binding	ISS Inferred from Sequence or Structural Similarity 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
involved_in lysosome organization	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
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 clathrin-coated vesicle	ISS Inferred from Sequence or Structural Similarity more info
located_in early endosome membrane	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 endosome	ISS Inferred from Sequence or Structural Similarity 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
located_in trans-Golgi network	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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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)

NM_001355183.1 → NP_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:51 → 97

CRAL_TRIO_N; CRAL/TRIO, N-terminal domain

pfam00650
Location:125 → 274

CRAL_TRIO; CRAL/TRIO domain
NM_028940.2 → NP_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:51 → 97

CRAL_TRIO_N; CRAL/TRIO, N-terminal domain

pfam00650
Location:125 → 274

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

NC_000070.7 Reference GRCm39 C57BL/6J

Range

9144753..9451691

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

Conserved Domains (1) summary

cd00170
Location:100 → 220

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 ...
XM_030253852.2 → XP_030109712.1 clavesin-1 isoform X5

Conserved Domains (1) summary

smart01100
Location:51 → 97

CRAL_TRIO_N; CRAL/TRIO, N-terminal domain
XM_006538321.4 → XP_006538384.1 clavesin-1 isoform X3

Conserved Domains (1) summary

cd00170
Location:67 → 187

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 ...
XM_030253851.2 → XP_030109711.1 clavesin-1 isoform X1

UniProtKB/Swiss-Prot

Q3UWV3, Q497H3, Q8BJE8, Q8BXX0, Q9D4C9

Conserved Domains (2) summary

smart01100
Location:51 → 97

CRAL_TRIO_N; CRAL/TRIO, N-terminal domain

pfam00650
Location:125 → 274

CRAL_TRIO; CRAL/TRIO domain
XM_006538322.5 → XP_006538385.1 clavesin-1 isoform X4

Conserved Domains (1) summary

cd00170
Location:4 → 124

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 ...