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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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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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