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    TMEM25 transmembrane protein 25 [ Homo sapiens (human) ]

    Gene ID: 84866, updated on 5-Mar-2024

    Summary

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    Official Symbol
    TMEM25provided by HGNC
    Official Full Name
    transmembrane protein 25provided by HGNC
    Primary source
    HGNC:HGNC:25890
    See related
    Ensembl:ENSG00000149582 MIM:613934; AllianceGenome:HGNC:25890
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Summary
    Predicted to be involved in negative regulation of excitatory postsynaptic potential and regulation of protein stability. Predicted to be located in late endosome and lysosome. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in duodenum (RPKM 15.5), small intestine (RPKM 11.2) and 24 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See TMEM25 in Genome Data Viewer
    Location:
    11q23.3
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (118531192..118547286)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (118550481..118566581)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (118401907..118418001)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancers GRCh37_chr11:118306179-118307176 and GRCh37_chr11:118307177-118308175 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:118308176-118309173 Neighboring gene lysine methyltransferase 2A Neighboring gene Sharpr-MPRA regulatory region 11577 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:118358704-118358932 Neighboring gene TTC36 and KMT2A antisense RNA 1 Neighboring gene Sharpr-MPRA regulatory region 12917 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3945 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3946 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3947 Neighboring gene tetratricopeptide repeat domain 36 Neighboring gene intraflagellar transport 46 Neighboring gene uncharacterized LOC124902764 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5593 Neighboring gene ribosomal protein L5 pseudogene 30

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. TMEM25 is a candidate biomarker methylated and down-regulated in colorectal cancer. Hrašovec S, et al. Dis Markers, 2013. PMID 23324576, Free PMC Article
    2. Identification and characterization of human TMEM25 and mouse Tmem25 genes in silico. Katoh M, et al. Oncol Rep, 2004 Aug. PMID 15254712
    3. TMEM25, REPS2 and Meis 1: favourable prognostic and predictive biomarkers for breast cancer. Doolan P, et al. Tumour Biol, 2009. PMID 19776672
    4. TMEM25 modulates neuronal excitability and NMDA receptor subunit NR2B degradation. Zhang H, et al. J Clin Invest, 2019 Sep 3. PMID 31424425, Free PMC Article
    5. Signal peptide prediction based on analysis of experimentally verified cleavage sites. Zhang Z, et al. Protein Sci, 2004 Oct. PMID 15340161, Free PMC Article

    See all (20) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. TMEM25 is a Par3-binding protein that attenuates claudin assembly during tight junction development.
      Title: TMEM25 is a Par3-binding protein that attenuates claudin assembly during tight junction development.
    2. Multidimensional comprehensive and integrated analysis of the potential function of TMEM25 in renal clear cell carcinoma with low expression status.
      Title: Multidimensional comprehensive and integrated analysis of the potential function of TMEM25 in renal clear cell carcinoma with low expression status.
    3. Human-biased TMEM25 expression promotes expansion of neural progenitor cells to alter cortical structure in the developing brain.
      Title: Human-biased TMEM25 expression promotes expansion of neural progenitor cells to alter cortical structure in the developing brain.
    4. TMEM25 hypermethylation might play a significant role in altering expression of this gene in colorectal cancer.
      Title: TMEM25 is a candidate biomarker methylated and down-regulated in colorectal cancer.
    5. TMEM25 may be a useful tumor marker for favorable prognosis in breast cancer.
      Title: TMEM25, REPS2 and Meis 1: favourable prognostic and predictive biomarkers for breast cancer.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ14399

    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 negative regulation of excitatory postsynaptic potential IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of excitatory postsynaptic potential ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of protein stability ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in late endosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in lysosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    transmembrane protein 25
    Names
    0610039J01Rik

    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_001144034.2 → NP_001137506.1  transmembrane protein 25 isoform 2 precursor

      See identical proteins and their annotated locations for NP_001137506.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an in-frame exon and uses an alternate splice junction in the 3' end compared to variant 7. The resulting isoform (2) lacks an alternate internal segment and has a shorter and distinct C-terminus compared to isoform 6. Variants 2 and 6 both encode the same isoform (2).
      Source sequence(s)
      AP000941, AY358919, BC042896, BF513120
      Consensus CDS
      CCDS44747.1
      UniProtKB/Swiss-Prot
      Q86YD3
      Related
      ENSP00000352924.4, ENST00000359862.8
      Conserved Domains (1) summary
      cl11960
      Location:27 → 118
      Ig; Immunoglobulin domain

    2. NM_001144035.2 → NP_001137507.1  transmembrane protein 25 isoform 2 precursor

      See identical proteins and their annotated locations for NP_001137507.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) differs in the 5' UTR, lacks an alternate in-frame exon, and uses an alternate splice junction in the 3' end compared to variant 7. The resulting isoform (2) lacks an alternate internal segment and has a shorter and distinct C-terminus compared to isoform 6. Variants 2 and 6 both encode the same isoform (2).
      Source sequence(s)
      AK292359, AP000941, BC042896, BF513120
      Consensus CDS
      CCDS44747.1
      UniProtKB/Swiss-Prot
      Q86YD3
      Related
      ENSP00000411882.2, ENST00000411589.6
      Conserved Domains (1) summary
      cl11960
      Location:27 → 118
      Ig; Immunoglobulin domain

    3. NM_001144036.2 → NP_001137508.1  transmembrane protein 25 isoform 3 precursor

      See identical proteins and their annotated locations for NP_001137508.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks two in-frame exons and uses an alternate splice junction in the 3' end compared to variant 7. The resulting isoform (3) lacks two alternate internal segments and has a shorter and distinct C-terminus compared to isoform 6.
      Source sequence(s)
      AK056325, AP000941, BC042896, BF513120
      Consensus CDS
      CCDS44748.1
      UniProtKB/TrEMBL
      H0YD63
      Related
      ENSP00000278959.8, ENST00000354064.11

    4. NM_001144037.2 → NP_001137509.1  transmembrane protein 25 isoform 4 precursor

      See identical proteins and their annotated locations for NP_001137509.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 3' UTR and coding sequence compared to variant 7. The resulting isoform (4) has a shorter and distinct C-terminus compared to isoform 6.
      Source sequence(s)
      AK027305, AK075437, AP000941, BC042896, BF513120
      Consensus CDS
      CCDS44745.1
      Related
      ENSP00000346237.4, ENST00000354284.8
      Conserved Domains (1) summary
      pfam08205
      Location:27 → 118
      C2-set_2; CD80-like C2-set immunoglobulin domain

    5. NM_001144038.2 → NP_001137510.1  transmembrane protein 25 isoform 5 precursor

      See identical proteins and their annotated locations for NP_001137510.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) lacks an in-frame exon and differs in the 3' UTR and coding sequence compared to variant 7. The resulting isoform (5) lacks an alternate internal segment and has a shorter and distinct C-terminus compared to isoform 6.
      Source sequence(s)
      AK075437, AK096260, AP000941
      Consensus CDS
      CCDS44746.1
      UniProtKB/Swiss-Prot
      Q86YD3
      Related
      ENSP00000416071.2, ENST00000442938.6
      Conserved Domains (1) summary
      cl11960
      Location:27 → 118
      Ig; Immunoglobulin domain

    6. NM_001318755.2 → NP_001305684.1  transmembrane protein 25 isoform 6 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) encodes the longest isoform (6).
      Source sequence(s)
      AK225415, AP000941, BF513120
      Consensus CDS
      CCDS81630.1
      UniProtKB/TrEMBL
      E9PKP3
      Related
      ENSP00000431548.1, ENST00000533102.5
      Conserved Domains (1) summary
      cl11960
      Location:27 → 118
      Ig; Immunoglobulin domain

    7. NM_001318757.2 → NP_001305686.1  transmembrane protein 25 isoform 7 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (8) lacks an alternate in-frame exon and uses an alternate splice junction in the 3' end compared to variant 7. The resulting isoform (7) lacks an alternate internal segment and has a shorter and distinct C-terminus compared to isoform 6.
      Source sequence(s)
      AK293670, AP000941, AY358919
      UniProtKB/TrEMBL
      B7Z1M8
      Conserved Domains (1) summary
      cl11960
      Location:27 → 118
      Ig; Immunoglobulin domain

    8. NM_032780.4 → NP_116169.2  transmembrane protein 25 isoform 1 precursor

      See identical proteins and their annotated locations for NP_116169.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) uses an alternate splice junction in the 3' end compared to variant 7. The resulting isoform (1) has a shorter and distinct C-terminus compared to isoform 6.
      Source sequence(s)
      AP000941, BC042896, BF513120
      Consensus CDS
      CCDS8398.1
      UniProtKB/Swiss-Prot
      A8K8J4, B0YJA6, B0YJA7, B0YJA9, G5E9U4, Q6UW89, Q86UA7, Q86YD3, Q8NBL5, Q96KA6, Q96MW9
      Related
      ENSP00000315635.5, ENST00000313236.10
      Conserved Domains (1) summary
      pfam08205
      Location:27 → 118
      C2-set_2; CD80-like C2-set immunoglobulin domain

    RNA

    1. NR_134852.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (9) lacks several exons and uses an alternate splice junction in the 3' end compared to variant 7. This variant is represented as non-coding because the predicted protein does not meet RefSeq quality criteria.
      Source sequence(s)
      AK293670, AP000941, AY358919, BF513120, DA760733

    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_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      118531192..118547286
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047427725.1 → XP_047283681.1  transmembrane protein 25 isoform X4

    2. XM_047427741.1 → XP_047283697.1  transmembrane protein 25 isoform X10

    3. XM_047427743.1 → XP_047283699.1  transmembrane protein 25 isoform X11

    4. XM_047427727.1 → XP_047283683.1  transmembrane protein 25 isoform X5

    5. XM_047427740.1 → XP_047283696.1  transmembrane protein 25 isoform X10

    6. XM_047427739.1 → XP_047283695.1  transmembrane protein 25 isoform X15

    7. XM_047427746.1 → XP_047283702.1  transmembrane protein 25 isoform X18

    8. XM_047427726.1 → XP_047283682.1  transmembrane protein 25 isoform X4

    9. XM_047427742.1 → XP_047283698.1  transmembrane protein 25 isoform X10

    10. XM_047427721.1 → XP_047283677.1  transmembrane protein 25 isoform X2

      UniProtKB/Swiss-Prot
      A8K8J4, B0YJA6, B0YJA7, B0YJA9, G5E9U4, Q6UW89, Q86UA7, Q86YD3, Q8NBL5, Q96KA6, Q96MW9

    11. XM_047427720.1 → XP_047283676.1  transmembrane protein 25 isoform X1

    12. XM_047427723.1 → XP_047283679.1  transmembrane protein 25 isoform X3

    13. XM_024448724.2 → XP_024304492.1  transmembrane protein 25 isoform X8

      Related
      ENSP00000431205.1, ENST00000524725.5
      Conserved Domains (1) summary
      cl11960
      Location:27 → 118
      Ig; Immunoglobulin domain

    14. XM_047427733.1 → XP_047283689.1  transmembrane protein 25 isoform X6

    15. XM_047427735.1 → XP_047283691.1  transmembrane protein 25 isoform X13

    16. XM_047427730.1 → XP_047283686.1  transmembrane protein 25 isoform X12

    17. XM_047427744.1 → XP_047283700.1  transmembrane protein 25 isoform X16

    18. XM_006718926.3 → XP_006718989.1  transmembrane protein 25 isoform X1

      See identical proteins and their annotated locations for XP_006718989.1

      Conserved Domains (2) summary
      cd00096
      Location:30 → 34
      Ig; Ig strand A' [structural motif]
      cl11960
      Location:27 → 118
      Ig; Immunoglobulin domain

    19. XM_047427722.1 → XP_047283678.1  transmembrane protein 25 isoform X3

    20. XM_047427731.1 → XP_047283687.1  transmembrane protein 25 isoform X6

    21. XM_017018430.3 → XP_016873919.1  transmembrane protein 25 isoform X9

    22. XM_011543038.3 → XP_011541340.1  transmembrane protein 25 isoform X7

      Conserved Domains (1) summary
      cl11960
      Location:27 → 118
      Ig; Immunoglobulin domain

    23. XM_047427734.1 → XP_047283690.1  transmembrane protein 25 isoform X13

    24. XM_047427728.1 → XP_047283684.1  transmembrane protein 25 isoform X12

    25. XM_047427738.1 → XP_047283694.1  transmembrane protein 25 isoform X14

    26. XM_017018432.3 → XP_016873921.1  transmembrane protein 25 isoform X16

    27. XM_047427745.1 → XP_047283701.1  transmembrane protein 25 isoform X17

    28. XM_017018422.3 → XP_016873911.1  transmembrane protein 25 isoform X2

      UniProtKB/Swiss-Prot
      A8K8J4, B0YJA6, B0YJA7, B0YJA9, G5E9U4, Q6UW89, Q86UA7, Q86YD3, Q8NBL5, Q96KA6, Q96MW9
      Conserved Domains (1) summary
      pfam08205
      Location:27 → 118
      C2-set_2; CD80-like C2-set immunoglobulin domain

    29. XM_005271703.2 → XP_005271760.1  transmembrane protein 25 isoform X1

      See identical proteins and their annotated locations for XP_005271760.1

      Conserved Domains (2) summary
      cd00096
      Location:30 → 34
      Ig; Ig strand A' [structural motif]
      cl11960
      Location:27 → 118
      Ig; Immunoglobulin domain

    30. XM_047427724.1 → XP_047283680.1  transmembrane protein 25 isoform X3

    31. XM_047427732.1 → XP_047283688.1  transmembrane protein 25 isoform X6

    32. XM_047427736.1 → XP_047283692.1  transmembrane protein 25 isoform X13

    33. XM_047427729.1 → XP_047283685.1  transmembrane protein 25 isoform X12

    34. XM_047427737.1 → XP_047283693.1  transmembrane protein 25 isoform X14

    35. XM_017018433.3 → XP_016873922.1  transmembrane protein 25 isoform X16

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      118550481..118566581
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054370226.1 → XP_054226201.1  transmembrane protein 25 isoform X5

    2. XM_054370233.1 → XP_054226208.1  transmembrane protein 25 isoform X10

    3. XM_054370225.1 → XP_054226200.1  transmembrane protein 25 isoform X4

    4. XM_054370235.1 → XP_054226210.1  transmembrane protein 25 isoform X10

    5. XM_054370218.1 → XP_054226193.1  transmembrane protein 25 isoform X1

    6. XM_054370221.1 → XP_054226196.1  transmembrane protein 25 isoform X3

    7. XM_054370227.1 → XP_054226202.1  transmembrane protein 25 isoform X6

    8. XM_054370232.1 → XP_054226207.1  transmembrane protein 25 isoform X9

    9. XM_054370230.1 → XP_054226205.1  transmembrane protein 25 isoform X7

    10. XM_054370220.1 → XP_054226195.1  transmembrane protein 25 isoform X2

      UniProtKB/Swiss-Prot
      A8K8J4, B0YJA6, B0YJA7, B0YJA9, G5E9U4, Q6UW89, Q86UA7, Q86YD3, Q8NBL5, Q96KA6, Q96MW9

    11. XM_054370219.1 → XP_054226194.1  transmembrane protein 25 isoform X1

    12. XM_054370223.1 → XP_054226198.1  transmembrane protein 25 isoform X3

    13. XM_054370228.1 → XP_054226203.1  transmembrane protein 25 isoform X6

    14. XM_054370234.1 → XP_054226209.1  transmembrane protein 25 isoform X10

    15. XM_054370231.1 → XP_054226206.1  transmembrane protein 25 isoform X8

    16. XM_054370236.1 → XP_054226211.1  transmembrane protein 25 isoform X11

    17. XM_054370222.1 → XP_054226197.1  transmembrane protein 25 isoform X3

    18. XM_054370224.1 → XP_054226199.1  transmembrane protein 25 isoform X4

    19. XM_054370229.1 → XP_054226204.1  transmembrane protein 25 isoform X6

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q86YD3.1 GenPept UniProtKB/Swiss-Prot:Q86YD3

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