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ROGDI rogdi atypical leucine zipper [ Homo sapiens (human) ]

Gene ID: 79641, updated on 23-Nov-2023

Summary

Official Symbol
ROGDIprovided by HGNC
Official Full Name
rogdi atypical leucine zipperprovided by HGNC
Primary source
HGNC:HGNC:29478
See related
Ensembl:ENSG00000067836 MIM:614574; AllianceGenome:HGNC:29478
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
KTZS; RAV2; ROGD1
Summary
Involved in brain development; neurogenesis; and odontogenesis of dentin-containing tooth. Located in nuclear envelope. Implicated in Kohlschutter-Tonz syndrome. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in brain (RPKM 26.0), bone marrow (RPKM 23.4) and 25 other tissues See more
Orthologs
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Genomic context

See ROGDI in Genome Data Viewer
Location:
16p13.3
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (4796968..4802633, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (4826450..4832187, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (4846969..4852634, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene dynein axonemal assembly factor 8 Neighboring gene zinc finger protein 500 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7165 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10344 Neighboring gene septin 12 Neighboring gene small integral membrane protein 22 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:4852142-4852642 Neighboring gene Sharpr-MPRA regulatory region 4562 Neighboring gene glyoxylate reductase 1 homolog Neighboring gene uncharacterized LOC124903638 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10345 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10346 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:4897448-4898290 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr16:4901871-4903070 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr16:4908973-4910172 Neighboring gene ubinuclein 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:4920799-4920984

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • FLJ22386

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in brain development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in hemopoiesis IEA
Inferred from Electronic Annotation
more info
 
involved_in neurogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in odontogenesis of dentin-containing tooth IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of cell population proliferation IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
part_of RAVE complex IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in axon IEA
Inferred from Electronic Annotation
more info
 
located_in dendrite IEA
Inferred from Electronic Annotation
more info
 
located_in hippocampal mossy fiber to CA3 synapse IEA
Inferred from Electronic Annotation
more info
 
located_in nuclear envelope IDA
Inferred from Direct Assay
more info
PubMed 
located_in perikaryon IEA
Inferred from Electronic Annotation
more info
 
located_in synaptic vesicle IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
protein rogdi homolog
Names
leucine zipper domain protein
rogdi homolog

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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.

Genomic

  1. NG_032174.1 RefSeqGene

    Range
    5001..10989
    Download
    GenBank, FASTA, Sequence Viewer (Graphics), LRG_455

mRNA and Protein(s)

  1. NM_024589.3NP_078865.1  protein rogdi homolog

    See identical proteins and their annotated locations for NP_078865.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the functional protein.
    Source sequence(s)
    AA740842, AC020663, BC012901
    Consensus CDS
    CCDS10523.1
    UniProtKB/Swiss-Prot
    Q6IA00, Q9GZN7
    UniProtKB/TrEMBL
    K7EPS3
    Related
    ENSP00000322832.6, ENST00000322048.12
    Conserved Domains (1) summary
    pfam10259
    Location:18276
    Rogdi_lz; Rogdi leucine zipper containing protein

RNA

  1. NR_046480.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AA740842, AK098348
    Related
    ENST00000587843.5

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    4796968..4802633 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006720947.5XP_006721010.1  protein rogdi homolog isoform X1

    See identical proteins and their annotated locations for XP_006721010.1

    UniProtKB/TrEMBL
    K7EPS3
    Conserved Domains (1) summary
    pfam10259
    Location:18283
    Rogdi_lz; Rogdi leucine zipper containing protein
  2. XM_047434636.1XP_047290592.1  protein rogdi homolog isoform X2

    UniProtKB/TrEMBL
    B3KNQ1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    4826450..4832187 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054313929.1XP_054169904.1  protein rogdi homolog isoform X1

    UniProtKB/TrEMBL
    K7EPS3
  2. XM_054313930.1XP_054169905.1  protein rogdi homolog isoform X2

    UniProtKB/TrEMBL
    B3KNQ1