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TRO trophinin [ Homo sapiens (human) ]

Gene ID: 7216, updated on 6-Nov-2022

Summary

Official Symbol
TROprovided by HGNC
Official Full Name
trophininprovided by HGNC
Primary source
HGNC:HGNC:12326
See related
Ensembl:ENSG00000067445 MIM:300132; AllianceGenome:HGNC:12326
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
MAGED3; MAGE-d3
Summary
This gene encodes a membrane protein that mediates cell adhesion between trophoblastic cells and the epithelial cells of the endometrium. The encoded protein participates in cell signalling during embryo implantation, and may also be involved in cancer formation. This gene is located near several other closely related genes on chromosome X. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Sep 2012]
Expression
Broad expression in ovary (RPKM 9.7), brain (RPKM 9.7) and 20 other tissues See more
Orthologs
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Genomic context

See TRO in Genome Data Viewer
Location:
Xp11.21
Exon count:
15
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (54920824..54931431)
110 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (54213952..54224559)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (54947257..54957864)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene inter-alpha-trypsin inhibitor heavy chain family member 6 Neighboring gene MAGE family member D2 Neighboring gene small nucleolar RNA, H/ACA box 11 Neighboring gene small nucleolar RNA, H/ACA box 11G Neighboring gene 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1 Neighboring gene Sharpr-MPRA regulatory regions 2439 and 5762 Neighboring gene apurinic/apyrimidinic endodeoxyribonuclease 2

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

Homology

Clone Names

  • KIAA1114

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in plasma membrane TAS
Traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
trophinin
Names
MAGE superfamily protein
MAGE-D3 antigen
magphinin
melanoma antigen, family D, 3

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.

Genomic

  1. NG_012806.1 RefSeqGene

    Range
    5009..15616
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001039705.3NP_001034794.1  trophinin isoform 5

    See identical proteins and their annotated locations for NP_001034794.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) represents the longest transcript and encodes the longest isoform (5).
    Source sequence(s)
    AB029037, AF349719, DB177388
    Consensus CDS
    CCDS43959.1
    UniProtKB/Swiss-Prot
    Q12816, Q9UPN8
    UniProtKB/TrEMBL
    Q9BX91
    Related
    ENSP00000173898.7, ENST00000173898.12
    Conserved Domains (2) summary
    COG1357
    Location:9741183
    YjbI; Uncharacterized protein YjbI, contains pentapeptide repeats [Function unknown]
    pfam01454
    Location:451611
    MAGE; MAGE family
  2. NM_001271183.2NP_001258112.1  trophinin isoform 6

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an alternate downstream in-frame start codon, compared to variant 6. The encoded isoform (6) has a shorter N-terminus, compared to isoform 5.
    Source sequence(s)
    AB029037, AF349719, AK296329
    Consensus CDS
    CCDS59529.1
    UniProtKB/Swiss-Prot
    Q12816
    UniProtKB/TrEMBL
    B4DK08, Q9BX91
    Related
    ENSP00000405126.2, ENST00000420798.6
    Conserved Domains (4) summary
    PTZ00395
    Location:789935
    PTZ00395; Sec24-related protein; Provisional
    COG1357
    Location:505714
    YjbI; Uncharacterized protein YjbI, contains pentapeptide repeats [Function unknown]
    pfam01454
    Location:13142
    MAGE; MAGE family
    pfam15967
    Location:627851
    Nucleoporin_FG2; Nucleoporin FG repeated region
  3. NM_001271184.2NP_001258113.1  trophinin isoform 7

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) differs in the 5' UTR and lacks an alternate exon in the 5' coding region, compared to variant 6. The encoded isoform (7) is shorter than isoform 5.
    Source sequence(s)
    AF349719, AK225841, DA128814
    Consensus CDS
    CCDS59528.1
    UniProtKB/TrEMBL
    Q9BX91
    Related
    ENSP00000364181.2, ENST00000375041.6
    Conserved Domains (2) summary
    COG1357
    Location:577786
    YjbI; Uncharacterized protein YjbI, contains pentapeptide repeats [Function unknown]
    pfam01454
    Location:54214
    MAGE; MAGE family
  4. NM_016157.4NP_057241.2  trophinin isoform 2

    See identical proteins and their annotated locations for NP_057241.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 3' UTR and lacks a portion of the 3' coding region, which results in a frameshift, compared to variant 6. The encoding isoform (2, also known as magphinin beta) is shorter and has a distinct C-terminus, compared to isoform 5.
    Source sequence(s)
    AF349719, AK027489
    Consensus CDS
    CCDS43958.1
    UniProtKB/Swiss-Prot
    Q12816
    UniProtKB/TrEMBL
    A0A024R9X0, Q9BX91
    Related
    ENSP00000318278.8, ENST00000319167.12
    Conserved Domains (1) summary
    pfam01454
    Location:451611
    MAGE; MAGE family
  5. NM_177556.3NP_808224.1  trophinin isoform 2

    See identical proteins and their annotated locations for NP_808224.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' and 3' UTRs, and lacks a portion of the 3' coding region, which results in a frameshift, compared to variant 6. The encoded isoform (2, also known as magphinin beta) is shorter and has a distinct C-terminus, compared to isoform 5.
    Source sequence(s)
    AF349720, AK225841
    Consensus CDS
    CCDS43958.1
    UniProtKB/Swiss-Prot
    Q12816
    UniProtKB/TrEMBL
    A0A024R9X0, Q9BX90
    Related
    ENSP00000364162.4, ENST00000375022.8
    Conserved Domains (1) summary
    pfam01454
    Location:451611
    MAGE; MAGE family
  6. NM_177557.3NP_808225.1  trophinin isoform 4

    See identical proteins and their annotated locations for NP_808225.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR, lacks an alternate exon in the 5' coding region, and lacks a portion of the 3' coding region, compared to variant 6. The encoded isoform (4) is shorter and has a distinct C-terminus, compared to isoform 5.
    Source sequence(s)
    AF349722, AK225841
    Consensus CDS
    CCDS59527.1
    UniProtKB/Swiss-Prot
    Q12816
    UniProtKB/TrEMBL
    Q9BX88
    Related
    ENSP00000382641.1, ENST00000399736.5
    Conserved Domains (1) summary
    pfam01454
    Location:54214
    MAGE; MAGE family

RNA

  1. NR_073148.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (9) uses an alternate splice site near the 5' end, and has an alternate 3' exon structure, compared to variant 6. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 6, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AF349719, AK225841
  2. NR_073149.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (10) uses an alternate splice site near the 5' end, lacks an internal exon, and has an alternate 3' exon structure, compared to variant 6. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 6, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AF349720, AF349721
    Related
    ENST00000622017.5

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p14 Primary Assembly

    Range
    54920824..54931431
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017029770.2XP_016885259.1  trophinin isoform X3

    UniProtKB/Swiss-Prot
    Q12816
    UniProtKB/TrEMBL
    A0A024R9X0
    Conserved Domains (1) summary
    pfam01454
    Location:451611
    MAGE; MAGE family
  2. XM_017029769.2XP_016885258.1  trophinin isoform X3

    UniProtKB/Swiss-Prot
    Q12816
    UniProtKB/TrEMBL
    A0A024R9X0
    Conserved Domains (1) summary
    pfam01454
    Location:451611
    MAGE; MAGE family
  3. XM_047442410.1XP_047298366.1  trophinin isoform X1

    UniProtKB/Swiss-Prot
    Q9UPN8
  4. XM_011530813.2XP_011529115.1  trophinin isoform X1

    See identical proteins and their annotated locations for XP_011529115.1

    UniProtKB/Swiss-Prot
    Q12816, Q9UPN8
    Conserved Domains (2) summary
    COG1357
    Location:9741183
    YjbI; Uncharacterized protein YjbI, contains pentapeptide repeats [Function unknown]
    pfam01454
    Location:451611
    MAGE; MAGE family
  5. XM_047442409.1XP_047298365.1  trophinin isoform X1

    UniProtKB/Swiss-Prot
    Q9UPN8
  6. XM_011530812.2XP_011529114.1  trophinin isoform X1

    See identical proteins and their annotated locations for XP_011529114.1

    UniProtKB/Swiss-Prot
    Q12816, Q9UPN8
    Conserved Domains (2) summary
    COG1357
    Location:9741183
    YjbI; Uncharacterized protein YjbI, contains pentapeptide repeats [Function unknown]
    pfam01454
    Location:451611
    MAGE; MAGE family
  7. XM_011530809.2XP_011529111.1  trophinin isoform X1

    See identical proteins and their annotated locations for XP_011529111.1

    UniProtKB/Swiss-Prot
    Q12816, Q9UPN8
    Conserved Domains (2) summary
    COG1357
    Location:9741183
    YjbI; Uncharacterized protein YjbI, contains pentapeptide repeats [Function unknown]
    pfam01454
    Location:451611
    MAGE; MAGE family
  8. XM_047442411.1XP_047298367.1  trophinin isoform X2

  9. XM_047442412.1XP_047298368.1  trophinin isoform X4

    UniProtKB/TrEMBL
    G5E9N2
    Related
    ENSP00000404794.1, ENST00000445561.5
  10. XM_017029767.2XP_016885256.1  trophinin isoform X1

    UniProtKB/Swiss-Prot
    Q12816, Q9UPN8
    Conserved Domains (2) summary
    COG1357
    Location:9741183
    YjbI; Uncharacterized protein YjbI, contains pentapeptide repeats [Function unknown]
    pfam01454
    Location:451611
    MAGE; MAGE family
  11. XM_011530811.3XP_011529113.1  trophinin isoform X1

    See identical proteins and their annotated locations for XP_011529113.1

    UniProtKB/Swiss-Prot
    Q12816, Q9UPN8
    Conserved Domains (2) summary
    COG1357
    Location:9741183
    YjbI; Uncharacterized protein YjbI, contains pentapeptide repeats [Function unknown]
    pfam01454
    Location:451611
    MAGE; MAGE family
  12. XM_017029771.2XP_016885260.1  trophinin isoform X3

    UniProtKB/Swiss-Prot
    Q12816
    UniProtKB/TrEMBL
    A0A024R9X0
    Conserved Domains (1) summary
    pfam01454
    Location:451611
    MAGE; MAGE family

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    54213952..54224559
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)