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lrba LPS-responsive vesicle trafficking, beach and anchor containing [ Danio rerio (zebrafish) ]

Gene ID: 562379, updated on 2-Nov-2024

Summary

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Official Symbol
lrbaprovided by ZNC
Official Full Name
LPS-responsive vesicle trafficking, beach and anchor containingprovided by ZNC
Primary source
ZFIN:ZDB-GENE-090311-19
See related
Ensembl:ENSDARG00000031108 AllianceGenome:ZFIN:ZDB-GENE-090311-19
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
im:7138144; si:dkey-257n17.3
Summary
Predicted to enable protein kinase binding activity. Predicted to be involved in protein localization. Predicted to be active in cytosol and membrane. Is expressed in hindbrain and intestinal bulb. Human ortholog(s) of this gene implicated in common variable immunodeficiency 8. Orthologous to human LRBA (LPS responsive beige-like anchor protein). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
human mouse all
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Genomic context

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See lrba in Genome Data Viewer
Location:
chromosome: 1
Exon count:
57
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (23920688..24350418, complement)

Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108190619 Neighboring gene uncharacterized LOC137495490 Neighboring gene slit homolog 2 (Drosophila) Neighboring gene microRNA 218a-2 Neighboring gene mab-21-like 2 Neighboring gene serine/threonine-protein kinase pim-2-like Neighboring gene ribosomal protein S3A

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Identification of Variants in RET and IHH Pathway Members in a Large Family With History of Hirschsprung Disease. Sribudiani Y, et al. Gastroenterology, 2018 Jul. PMID 29601828
  2. Genome-wide identification of conserved intronic non-coding sequences using a Bayesian segmentation approach. Algama M, et al. BMC Genomics, 2017 Mar 27. PMID 28347272, Free PMC Article
  3. A morpholino-based screen to identify novel genes involved in craniofacial morphogenesis. Melvin VS, et al. Dev Dyn, 2013 Jul. PMID 23559552, Free PMC Article
  4. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article
  5. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables protein kinase binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in protein localization IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
lipopolysaccharide-responsive and beige-like anchor protein

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007112.7 Reference GRCz11 Primary Assembly

    Range
    23920688..24350418 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068221229.1 → XP_068077330.1  lipopolysaccharide-responsive and beige-like anchor protein isoform X6

  2. XM_017356061.3 → XP_017211550.1  lipopolysaccharide-responsive and beige-like anchor protein isoform X2

    UniProtKB/TrEMBL
    A0A8M6Z0J6

  3. XM_021476409.2 → XP_021332084.1  lipopolysaccharide-responsive and beige-like anchor protein isoform X8

    UniProtKB/TrEMBL
    A0A8M9Q3Z4
    Conserved Domains (8) summary
    sd00039
    Location:2640 → 2692
    7WD40; WD40 repeat [structural motif]
    pfam02138
    Location:2210 → 2486
    Beach; Beige/BEACH domain
    pfam06469
    Location:1890 → 2055
    DUF1088; Domain of Unknown Function (DUF1088)
    pfam14844
    Location:2081 → 2178
    PH_BEACH; PH domain associated with Beige/BEACH
    pfam15787
    Location:418 → 689
    DUF4704; Domain of unknown function (DUF4704)
    cl22861
    Location:201 → 348
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    cl25539
    Location:2597 → 2842
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    cl26761
    Location:912 → 1312
    MDN1; Midasin, AAA ATPase with vWA domain, involved in ribosome maturation [Translation, ribosomal structure and biogenesis]

  4. XM_002660442.7 → XP_002660488.3  lipopolysaccharide-responsive and beige-like anchor protein isoform X7

    UniProtKB/TrEMBL
    A0A286Y8V9, A0A8M1RJV8
    Related
    ENSDARP00000143583.1, ENSDART00000177989.2
    Conserved Domains (8) summary
    sd00039
    Location:2640 → 2693
    7WD40; WD40 repeat [structural motif]
    pfam02138
    Location:2210 → 2486
    Beach; Beige/BEACH domain
    pfam06469
    Location:1890 → 2055
    DUF1088; Domain of Unknown Function (DUF1088)
    pfam14844
    Location:2081 → 2178
    PH_BEACH; PH domain associated with Beige/BEACH
    pfam15787
    Location:418 → 689
    DUF4704; Domain of unknown function (DUF4704)
    cl22861
    Location:201 → 348
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    cl25539
    Location:2597 → 2843
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    cl26761
    Location:912 → 1312
    MDN1; Midasin, AAA ATPase with vWA domain, involved in ribosome maturation [Translation, ribosomal structure and biogenesis]

  5. XM_009291248.4 → XP_009289523.1  lipopolysaccharide-responsive and beige-like anchor protein isoform X4

    UniProtKB/TrEMBL
    A0A8M3AI36
    Conserved Domains (10) summary
    PTZ00438
    Location:924 → 1058
    PTZ00438; gamete antigen 27/25-like protein; Provisional
    COG2319
    Location:2602 → 2860
    WD40; WD40 repeat [General function prediction only]
    pfam02138
    Location:2210 → 2486
    Beach; Beige/BEACH domain
    pfam06469
    Location:1890 → 2055
    DUF1088; Domain of Unknown Function (DUF1088)
    pfam12935
    Location:1089 → 1334
    Sec16_N; Vesicle coat trafficking protein Sec16 N-terminus
    pfam14844
    Location:2081 → 2178
    PH_BEACH; PH domain associated with Beige/BEACH
    pfam15787
    Location:418 → 689
    DUF4704; Domain of unknown function (DUF4704)
    sd00039
    Location:2645 → 2698
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:2602 → 2848
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    cl22861
    Location:201 → 348
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

  6. XM_009291244.4 → XP_009289519.1  lipopolysaccharide-responsive and beige-like anchor protein isoform X5

    UniProtKB/TrEMBL
    A0A8M3AGV1
    Conserved Domains (10) summary
    PTZ00438
    Location:924 → 1058
    PTZ00438; gamete antigen 27/25-like protein; Provisional
    COG2319
    Location:2602 → 2860
    WD40; WD40 repeat [General function prediction only]
    pfam02138
    Location:2215 → 2491
    Beach; Beige/BEACH domain
    pfam06469
    Location:1890 → 2060
    DUF1088; Domain of Unknown Function (DUF1088)
    pfam12935
    Location:1089 → 1334
    Sec16_N; Vesicle coat trafficking protein Sec16 N-terminus
    pfam14844
    Location:2086 → 2183
    PH_BEACH; PH domain associated with Beige/BEACH
    pfam15787
    Location:418 → 689
    DUF4704; Domain of unknown function (DUF4704)
    sd00039
    Location:2645 → 2698
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:2602 → 2848
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    cl22861
    Location:201 → 348
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

  7. XM_021476404.2 → XP_021332079.1  lipopolysaccharide-responsive and beige-like anchor protein isoform X3

    UniProtKB/TrEMBL
    A0A8M9Q3Y6
    Conserved Domains (8) summary
    sd00039
    Location:2650 → 2702
    7WD40; WD40 repeat [structural motif]
    pfam02138
    Location:2215 → 2491
    Beach; Beige/BEACH domain
    pfam06469
    Location:1890 → 2060
    DUF1088; Domain of Unknown Function (DUF1088)
    pfam14844
    Location:2086 → 2183
    PH_BEACH; PH domain associated with Beige/BEACH
    pfam15787
    Location:418 → 689
    DUF4704; Domain of unknown function (DUF4704)
    cl22861
    Location:201 → 348
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    cl25539
    Location:2607 → 2852
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    cl26761
    Location:912 → 1312
    MDN1; Midasin, AAA ATPase with vWA domain, involved in ribosome maturation [Translation, ribosomal structure and biogenesis]

  8. XM_009291242.4 → XP_009289517.1  lipopolysaccharide-responsive and beige-like anchor protein isoform X1

    UniProtKB/TrEMBL
    A0A8M3APD0
    Conserved Domains (10) summary
    PTZ00438
    Location:924 → 1058
    PTZ00438; gamete antigen 27/25-like protein; Provisional
    COG2319
    Location:2607 → 2865
    WD40; WD40 repeat [General function prediction only]
    pfam02138
    Location:2215 → 2491
    Beach; Beige/BEACH domain
    pfam06469
    Location:1890 → 2060
    DUF1088; Domain of Unknown Function (DUF1088)
    pfam12935
    Location:1089 → 1334
    Sec16_N; Vesicle coat trafficking protein Sec16 N-terminus
    pfam14844
    Location:2086 → 2183
    PH_BEACH; PH domain associated with Beige/BEACH
    pfam15787
    Location:418 → 689
    DUF4704; Domain of unknown function (DUF4704)
    sd00039
    Location:2650 → 2703
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:2607 → 2853
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    cl22861
    Location:201 → 348
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394482.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    7002..222800 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021471195.2 → XP_021326870.1  lipopolysaccharide-responsive and beige-like anchor protein isoform X9

    UniProtKB/TrEMBL
    A0A286Y8V9, A0A8M1RJV8
    Conserved Domains (8) summary
    sd00039
    Location:2640 → 2693
    7WD40; WD40 repeat [structural motif]
    pfam02138
    Location:2210 → 2486
    Beach; Beige/BEACH domain
    pfam06469
    Location:1890 → 2055
    DUF1088; Domain of Unknown Function (DUF1088)
    pfam14844
    Location:2081 → 2178
    PH_BEACH; PH domain associated with Beige/BEACH
    pfam15787
    Location:418 → 689
    DUF4704; Domain of unknown function (DUF4704)
    cl22861
    Location:201 → 348
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    cl25539
    Location:2597 → 2843
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    cl26761
    Location:912 → 1312
    MDN1; Midasin, AAA ATPase with vWA domain, involved in ribosome maturation [Translation, ribosomal structure and biogenesis]
Nucleotide Protein Strain
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