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rhbdl3 rhomboid, veinlet-like 3 (Drosophila) [ Danio rerio (zebrafish) ]

Gene ID: 550128, updated on 27-Mar-2024

Summary

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Official Symbol
rhbdl3provided by ZNC
Official Full Name
rhomboid, veinlet-like 3 (Drosophila)provided by ZNC
Primary source
ZFIN:ZDB-GENE-050417-2
See related
Ensembl:ENSDARG00000105190 AllianceGenome:ZFIN:ZDB-GENE-050417-2
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
vrho; zgc:113283; si:dkey-10p5.8
Summary
Predicted to enable serine-type endopeptidase activity. Predicted to act upstream of or within proteolysis. Predicted to be located in membrane. Predicted to be integral component of membrane. Is expressed in several structures, including basal plate midbrain region; hatching gland; midbrain neural keel; nervous system; and presumptive diencephalon. Orthologous to human RHBDL3 (rhomboid like 3). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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See rhbdl3 in Genome Data Viewer
Location:
chromosome: 6
Exon count:
11
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (18623497..18698497, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (22152521..22227150, complement)

Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene cd7 antigen-like Neighboring gene zinc finger protein 207, b Neighboring gene trinucleotide repeat containing adaptor 6C2 Neighboring gene transposon Tf2-1 polyprotein-like

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
  • 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. Fine selection of up-regulated genes during ovulation by in vivo induction of oocyte maturation and ovulation in zebrafish. Klangnurak W, et al. Zoological Lett, 2017. PMID 28265462, Free PMC Article
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  4. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables serine-type endopeptidase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables serine-type endopeptidase activity 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
rhomboid-related protein 3
Names
ventrhoid transmembrane protein
NP_001017556.1
XP_005166241.1
XP_005166242.1
XP_005166244.1
XP_009300624.1
XP_021332544.1

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_001017556.2 → NP_001017556.1  rhomboid-related protein 3

    See identical proteins and their annotated locations for NP_001017556.1

    Status: PROVISIONAL

    Source sequence(s)
    BC093439
    UniProtKB/TrEMBL
    A0A0R4IFF3, B2GP95, Q566N3
    Related
    ENSDARP00000134045.1, ENSDART00000166587.2
    Conserved Domains (1) summary
    pfam01694
    Location:107 → 261
    Rhomboid; Rhomboid family

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007117.7 Reference GRCz11 Primary Assembly

    Range
    18623497..18698497 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005166185.4 → XP_005166242.1  rhomboid-related protein 3 isoform X2

    UniProtKB/TrEMBL
    A0A0R4IRL0, A0A8M2BDN8
    Related
    ENSDARP00000139086.2, ENSDART00000168554.2
    Conserved Domains (2) summary
    cd00051
    Location:31 → 87
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam01694
    Location:200 → 354
    Rhomboid; Rhomboid family

  2. XM_009302349.3 → XP_009300624.1  rhomboid-related protein 3 isoform X3

    UniProtKB/TrEMBL
    A0A8M3BAC5
    Conserved Domains (3) summary
    cd00051
    Location:35 → 95
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam01694
    Location:200 → 354
    Rhomboid; Rhomboid family
    pfam13499
    Location:35 → 94
    EF-hand_7; EF-hand domain pair

  3. XM_005166184.4 → XP_005166241.1  rhomboid-related protein 3 isoform X1

    See identical proteins and their annotated locations for XP_005166241.1

    UniProtKB/TrEMBL
    A0A8M2BDR8, Q2A943
    Related
    ENSDARP00000143289.1, ENSDART00000175205.2
    Conserved Domains (3) summary
    cd00051
    Location:35 → 95
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam01694
    Location:208 → 362
    Rhomboid; Rhomboid family
    pfam13499
    Location:35 → 94
    EF-hand_7; EF-hand domain pair

  4. XM_005166187.3 → XP_005166244.1  rhomboid-related protein 3 isoform X4

    UniProtKB/TrEMBL
    A0A8M2BDK9
    Conserved Domains (3) summary
    cd00051
    Location:20 → 76
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam01694
    Location:189 → 343
    Rhomboid; Rhomboid family
    pfam13499
    Location:20 → 75
    EF-hand_7; EF-hand domain pair

  5. XM_021476869.1 → XP_021332544.1  rhomboid-related protein 3 isoform X5

    UniProtKB/TrEMBL
    A0A8M9Q644
    Conserved Domains (2) summary
    pfam01694
    Location:208 → 297
    Rhomboid; Rhomboid family
    pfam13499
    Location:31 → 95
    EF-hand_7; EF-hand domain pair

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394637.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    155770..228387 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCz11 ALT_DRER_TU_2

Genomic

  1. NW_018395252.1 Reference GRCz11 ALT_DRER_TU_2

    Range
    363705..430641 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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