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Gramd4 GRAM domain containing 4 [ Mus musculus (house mouse) ]

Gene ID: 223752, updated on 7-Apr-2024

Summary

Official Symbol
Gramd4provided by MGI
Official Full Name
GRAM domain containing 4provided by MGI
Primary source
MGI:MGI:2676308
See related
Ensembl:ENSMUSG00000035900 AllianceGenome:MGI:2676308
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
9930016O13
Summary
Involved in negative regulation of toll-like receptor 9 signaling pathway. Predicted to be located in endoplasmic reticulum and membrane. Predicted to be integral component of membrane. Predicted to be active in mitochondrion. Is expressed in central nervous system; dorsal root ganglion; and retina. Orthologous to human GRAMD4 (GRAM domain containing 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in whole brain E14.5 (RPKM 10.5), CNS E18 (RPKM 10.3) and 27 other tissues See more
Orthologs
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Genomic context

See Gramd4 in Genome Data Viewer
Location:
15 E2; 15 40.48 cM
Exon count:
23
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (85941896..86021837)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (86057695..86137636)

Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene cadherin, EGF LAG seven-pass G-type receptor 1 Neighboring gene STARR-seq mESC enhancer starr_39409 Neighboring gene predicted gene, 34764 Neighboring gene STARR-seq mESC enhancer starr_39412 Neighboring gene predicted gene, 41375 Neighboring gene STARR-positive B cell enhancer ABC_E9422 Neighboring gene predicted gene 15722 Neighboring gene STARR-positive B cell enhancer mm9_chr15:86003680-86003981 Neighboring gene CapStarr-seq enhancer MGSCv37_chr15:86012285-86012732 Neighboring gene CapStarr-seq enhancer MGSCv37_chr15:86013160-86013361 Neighboring gene CapStarr-seq enhancer MGSCv37_chr15:86033071-86033180 Neighboring gene ceramide kinase Neighboring gene predicted gene 15569 Neighboring gene TBC1 domain family, member 22a Neighboring gene predicted gene, 22818

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)
  • Endonuclease-mediated (1) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General protein information

Preferred Names
GRAM domain-containing protein 4
Names
death-inducing protein

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_001205353.1NP_001192282.1  GRAM domain-containing protein 4 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, initiates translation at an alternate start codon, and uses an alternate splice site in the 3' coding region, compared to variant 1, which results in a translational frameshift. The encoded isoform (2) is shorter and has distinct N- and C-termini, compared to isoform 1.
    Source sequence(s)
    AC116764, BC085148
    Consensus CDS
    CCDS56998.1
    UniProtKB/TrEMBL
    D3YUE7, Q5U4C7
    Related
    ENSMUSP00000120796.2, ENSMUST00000138134.8
    Conserved Domains (2) summary
    cd13221
    Location:490593
    PH-GRAM_GRAMDC4; GRAM domain-containing protein 4 (GRAMDC4) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain
    pfam08372
    Location:335427
    PRT_C; Plant phosphoribosyltransferase C-terminal
  2. NM_001379572.1NP_001366501.1  GRAM domain-containing protein 4 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC116764
    UniProtKB/Swiss-Prot
    B2RTC1, Q6ZQ52, Q8CB44, Q8VDL6
    Conserved Domains (1) summary
    cd13221
    Location:490595
    PH-GRAM_GRAMDC4; GRAM domain-containing protein 4 (GRAMDC4) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain
  3. NM_172611.5NP_766199.2  GRAM domain-containing protein 4 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the shorter transcript and encodes the shorter isoform (1).
    Source sequence(s)
    AC116764
    UniProtKB/Swiss-Prot
    B2RTC1, Q6ZQ52, Q8CB44, Q8VDL6
    Related
    ENSMUSP00000086321.4, ENSMUST00000088931.10
    Conserved Domains (3) summary
    cd13221
    Location:464569
    PH-GRAM_GRAMDC4; GRAM domain-containing protein 4 (GRAMDC4) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain
    pfam09755
    Location:37130
    DUF2046; Uncharacterized conserved protein H4 (DUF2046)
    pfam08372
    Location:309401
    PRT_C; Plant phosphoribosyltransferase C-terminal

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_000081.7 Reference GRCm39 C57BL/6J

    Range
    85941896..86021837
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006520821.2XP_006520884.2  GRAM domain-containing protein 4 isoform X1

    UniProtKB/TrEMBL
    Q5U4C7
    Conserved Domains (2) summary
    cd13221
    Location:515618
    PH-GRAM_GRAMDC4; GRAM domain-containing protein 4 (GRAMDC4) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain
    pfam16515
    Location:141187
    HIP1_clath_bdg; Clathrin-binding domain of Huntingtin-interacting protein 1
  2. XM_006520828.2XP_006520891.1  GRAM domain-containing protein 4 isoform X3

    See identical proteins and their annotated locations for XP_006520891.1

    UniProtKB/TrEMBL
    Q5U4C7
    Conserved Domains (3) summary
    cd13221
    Location:464567
    PH-GRAM_GRAMDC4; GRAM domain-containing protein 4 (GRAMDC4) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain
    pfam09755
    Location:37130
    DUF2046; Uncharacterized conserved protein H4 (DUF2046)
    pfam16515
    Location:90136
    HIP1_clath_bdg; Clathrin-binding domain of Huntingtin-interacting protein 1
  3. XM_006520829.4XP_006520892.1  GRAM domain-containing protein 4 isoform X3

    See identical proteins and their annotated locations for XP_006520892.1

    UniProtKB/TrEMBL
    Q5U4C7
    Conserved Domains (3) summary
    cd13221
    Location:464567
    PH-GRAM_GRAMDC4; GRAM domain-containing protein 4 (GRAMDC4) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain
    pfam09755
    Location:37130
    DUF2046; Uncharacterized conserved protein H4 (DUF2046)
    pfam16515
    Location:90136
    HIP1_clath_bdg; Clathrin-binding domain of Huntingtin-interacting protein 1
  4. XM_006520822.4XP_006520885.1  GRAM domain-containing protein 4 isoform X2

    UniProtKB/TrEMBL
    Q5U4C7
    Conserved Domains (2) summary
    cd13221
    Location:517620
    PH-GRAM_GRAMDC4; GRAM domain-containing protein 4 (GRAMDC4) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain
    pfam16515
    Location:143189
    HIP1_clath_bdg; Clathrin-binding domain of Huntingtin-interacting protein 1

RNA

  1. XR_003951368.1 RNA Sequence

    Related
    ENSMUST00000123349.2