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Tmem40 transmembrane protein 40 [ Mus musculus (house mouse) ]

Gene ID: 94346, updated on 9-May-2024

Summary

Official Symbol
Tmem40provided by MGI
Official Full Name
transmembrane protein 40provided by MGI
Primary source
MGI:MGI:2137870
See related
Ensembl:ENSMUSG00000059900 AllianceGenome:MGI:2137870
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
9030407H20Rik
Summary
Predicted to be located in membrane. Predicted to be integral component of membrane. Is expressed in lens; lens vesicle; and liver lobe. Orthologous to human TMEM40 (transmembrane protein 40). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in bladder adult (RPKM 8.7), stomach adult (RPKM 6.9) and 14 other tissues See more
Orthologs
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Genomic context

See Tmem40 in Genome Data Viewer
Location:
6 E3; 6 53.68 cM
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (115706092..115739427, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (115729131..115762466, complement)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 38879 Neighboring gene STARR-positive B cell enhancer ABC_E10402 Neighboring gene predicted gene, 24008 Neighboring gene STARR-seq mESC enhancer starr_17094 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:115724212-115724399 Neighboring gene predicted gene, 44180 Neighboring gene microRNA 7660 Neighboring gene cullin associated and neddylation dissociated 2 (putative)

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) 
  • Targeted (1) 

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables molecular_function ND
No biological Data available
more info
 
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
 
Component Evidence Code Pubs
is_active_in cellular_component ND
No biological Data available
more info
 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 

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_001168256.1NP_001161728.1  transmembrane protein 40 isoform a

    See identical proteins and their annotated locations for NP_001161728.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a). Variants 1 and 2 both encode isoform a.
    Source sequence(s)
    AC109169, BY279100, CV561368, CX564997
    Consensus CDS
    CCDS39601.1
    UniProtKB/Swiss-Prot
    Q4FJU9, Q8C5D2, Q8VCR5
    UniProtKB/TrEMBL
    E9QN39
    Related
    ENSMUSP00000131697.2, ENSMUST00000166254.7
    Conserved Domains (1) summary
    pfam15817
    Location:105224
    TMEM40; Transmembrane protein 40 family
  2. NM_001168257.1NP_001161729.1  transmembrane protein 40 isoform b

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a.
    Source sequence(s)
    AC109169, BY279100, CV561368
    Consensus CDS
    CCDS51879.1
    UniProtKB/TrEMBL
    E9Q6I9
    Related
    ENSMUSP00000130407.2, ENSMUST00000170625.8
    Conserved Domains (1) summary
    pfam15817
    Location:80199
    TMEM40; Transmembrane protein 40 family
  3. NM_144805.2NP_659054.2  transmembrane protein 40 isoform a

    See identical proteins and their annotated locations for NP_659054.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode isoform a.
    Source sequence(s)
    AC109169, BY104106, BY767648, CV561368, CX564997
    Consensus CDS
    CCDS39601.1
    UniProtKB/Swiss-Prot
    Q4FJU9, Q8C5D2, Q8VCR5
    UniProtKB/TrEMBL
    E9QN39
    Related
    ENSMUSP00000072704.7, ENSMUST00000072933.13
    Conserved Domains (1) summary
    pfam15817
    Location:105224
    TMEM40; Transmembrane protein 40 family

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_000072.7 Reference GRCm39 C57BL/6J

    Range
    115706092..115739427 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036152415.1XP_036008308.1  transmembrane protein 40 isoform X5

    Conserved Domains (1) summary
    pfam15817
    Location:36155
    TMEM40; Transmembrane protein 40 family
  2. XM_036152416.1XP_036008309.1  transmembrane protein 40 isoform X5

    Conserved Domains (1) summary
    pfam15817
    Location:36155
    TMEM40; Transmembrane protein 40 family
  3. XM_006506819.5XP_006506882.1  transmembrane protein 40 isoform X2

    See identical proteins and their annotated locations for XP_006506882.1

    UniProtKB/Swiss-Prot
    Q4FJU9, Q8C5D2, Q8VCR5
    UniProtKB/TrEMBL
    E9QN39
    Conserved Domains (1) summary
    pfam15817
    Location:105224
    TMEM40; Transmembrane protein 40 family
  4. XM_011241511.3XP_011239813.1  transmembrane protein 40 isoform X2

    See identical proteins and their annotated locations for XP_011239813.1

    UniProtKB/Swiss-Prot
    Q4FJU9, Q8C5D2, Q8VCR5
    UniProtKB/TrEMBL
    E9QN39
    Conserved Domains (1) summary
    pfam15817
    Location:105224
    TMEM40; Transmembrane protein 40 family
  5. XM_011241510.3XP_011239812.1  transmembrane protein 40 isoform X1

    UniProtKB/TrEMBL
    E9QN39
    Conserved Domains (1) summary
    pfam15817
    Location:121240
    TMEM40; Transmembrane protein 40 family
  6. XM_011241512.4XP_011239814.1  transmembrane protein 40 isoform X3

    UniProtKB/TrEMBL
    E9QN39
    Conserved Domains (1) summary
    pfam15817
    Location:102221
    TMEM40; Transmembrane protein 40 family
  7. XM_011241513.4XP_011239815.1  transmembrane protein 40 isoform X4

    Conserved Domains (1) summary
    pfam15817
    Location:77196
    TMEM40; Transmembrane protein 40 family

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001168258.1: Suppressed sequence

    Description
    NM_001168258.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
  2. NM_001168259.1: Suppressed sequence

    Description
    NM_001168259.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.