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    ECM2 extracellular matrix protein 2 [ Homo sapiens (human) ]

    Gene ID: 1842, updated on 3-Dec-2024

    Summary

    Official Symbol
    ECM2provided by HGNC
    Official Full Name
    extracellular matrix protein 2provided by HGNC
    Primary source
    HGNC:HGNC:3154
    See related
    Ensembl:ENSG00000106823 MIM:603479; AllianceGenome:HGNC:3154
    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
    Summary
    ECM2 encodes extracellular matrix protein 2, so named because it shares extensive similarity with known extracelluar matrix proteins. Three transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Oct 2010]
    Expression
    Broad expression in fat (RPKM 50.1), ovary (RPKM 21.0) and 14 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See ECM2 in Genome Data Viewer
    Location:
    9q22.31
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (92493547..92559106, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (104660046..104703254, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (95255829..95298272, complement)

    Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene centromere protein P Neighboring gene osteomodulin Neighboring gene asporin Neighboring gene Sharpr-MPRA regulatory region 3268 Neighboring gene microRNA 4670 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr9:95320296-95321495 Neighboring gene uncharacterized LOC100128361 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:95383063-95383333 Neighboring gene inositol-pentakisphosphate 2-kinase Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28596 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20031 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28597 Neighboring gene uncharacterized LOC107987095 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28598 Neighboring gene Sharpr-MPRA regulatory region 2132 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_109781

    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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC126355, MGC126356

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables collagen V binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables heparin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables integrin binding TAS
    Traceable Author Statement
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in cell-matrix adhesion TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in extracellular matrix organization IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of cell-substrate adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Component Evidence Code Pubs
    is_active_in extracellular matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
     
    located_in interstitial matrix IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    extracellular matrix protein 2
    Names
    extracellular matrix protein 2, female organ and adipocyte specific
    matrix glycoprotein SC1/ECM2

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001197295.2NP_001184224.1  extracellular matrix protein 2 isoform 2 precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice junction at the 5' end of an exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      AB011792, BM972177, BX537976, DC300418
      UniProtKB/TrEMBL
      B4DK93
      Conserved Domains (4) summary
      COG4886
      Location:469651
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:299322
      LRR_RI; leucine-rich repeat [structural motif]
      pfam00093
      Location:103157
      VWC; von Willebrand factor type C domain
      cl26018
      Location:298550
      NEL; C-terminal novel E3 ligase, LRR-interacting
    2. NM_001197296.2NP_001184225.1  extracellular matrix protein 2 isoform 3 precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice junction at the 5' end of an exon and differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (3) lacks an internal segment and has a shorter and distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AB011792, BX537976, DC300418
      Consensus CDS
      CCDS56578.1
      UniProtKB/TrEMBL
      B4DK93
      Related
      ENSP00000393971.2, ENST00000444490.6
      Conserved Domains (5) summary
      cd00116
      Location:296525
      LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
      sd00031
      Location:588610
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:299322
      LRR_RI; leucine-rich repeat [structural motif]
      pfam00093
      Location:103157
      VWC; von Willebrand factor type C domain
      pfam13855
      Location:321383
      LRR_8; Leucine rich repeat
    3. NM_001393.4NP_001384.1  extracellular matrix protein 2 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001384.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AB011792, BM972177, DC300418
      Consensus CDS
      CCDS6698.1
      UniProtKB/Swiss-Prot
      B2R730, E2PU11, O94769, Q5T9F2, Q7Z3D0
      UniProtKB/TrEMBL
      B4DK93
      Related
      ENSP00000344758.5, ENST00000344604.10
      Conserved Domains (5) summary
      PRK15370
      Location:320572
      PRK15370; type III secretion system effector E3 ubiquitin transferase SlrP
      COG4886
      Location:491673
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:321344
      LRR_RI; leucine-rich repeat [structural motif]
      pfam00093
      Location:103157
      VWC; von Willebrand factor type C domain
      pfam14828
      Location:116210
      Amnionless

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000009.12 Reference GRCh38.p14 Primary Assembly

      Range
      92493547..92559106 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047422899.1XP_047278855.1  extracellular matrix protein 2 isoform X1

      UniProtKB/Swiss-Prot
      B2R730, E2PU11, O94769, Q5T9F2, Q7Z3D0
      UniProtKB/TrEMBL
      B4DK93
    2. XM_024447436.2XP_024303204.1  extracellular matrix protein 2 isoform X1

      UniProtKB/Swiss-Prot
      B2R730, E2PU11, O94769, Q5T9F2, Q7Z3D0
      UniProtKB/TrEMBL
      B4DK93
      Conserved Domains (5) summary
      PRK15370
      Location:320572
      PRK15370; type III secretion system effector E3 ubiquitin transferase SlrP
      COG4886
      Location:491673
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:321344
      LRR_RI; leucine-rich repeat [structural motif]
      pfam00093
      Location:103157
      VWC; von Willebrand factor type C domain
      pfam14828
      Location:116210
      Amnionless
    3. XM_024447435.2XP_024303203.1  extracellular matrix protein 2 isoform X1

      UniProtKB/Swiss-Prot
      B2R730, E2PU11, O94769, Q5T9F2, Q7Z3D0
      UniProtKB/TrEMBL
      B4DK93
      Conserved Domains (5) summary
      PRK15370
      Location:320572
      PRK15370; type III secretion system effector E3 ubiquitin transferase SlrP
      COG4886
      Location:491673
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:321344
      LRR_RI; leucine-rich repeat [structural motif]
      pfam00093
      Location:103157
      VWC; von Willebrand factor type C domain
      pfam14828
      Location:116210
      Amnionless
    4. XM_017014376.3XP_016869865.1  extracellular matrix protein 2 isoform X2

    RNA

    1. XR_007061259.1 RNA Sequence

    Reference GRCh38.p14 PATCHES

    Genomic

    1. NW_025791788.1 Reference GRCh38.p14 PATCHES

      Range
      328274..371451 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054333086.1XP_054189061.1  extracellular matrix protein 2 isoform X1

      UniProtKB/Swiss-Prot
      B2R730, E2PU11, O94769, Q5T9F2, Q7Z3D0
      UniProtKB/TrEMBL
      B4DK93
    2. XM_054333085.1XP_054189060.1  extracellular matrix protein 2 isoform X1

      UniProtKB/Swiss-Prot
      B2R730, E2PU11, O94769, Q5T9F2, Q7Z3D0
      UniProtKB/TrEMBL
      B4DK93
    3. XM_054333087.1XP_054189062.1  extracellular matrix protein 2 isoform X2

    RNA

    1. XR_008485819.1 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060933.1 Alternate T2T-CHM13v2.0

      Range
      104660046..104703254 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054362232.1XP_054218207.1  extracellular matrix protein 2 isoform X1

      UniProtKB/TrEMBL
      B4DK93
    2. XM_054362231.1XP_054218206.1  extracellular matrix protein 2 isoform X1

      UniProtKB/TrEMBL
      B4DK93
    3. XM_054362233.1XP_054218208.1  extracellular matrix protein 2 isoform X2

    RNA

    1. XR_008487958.1 RNA Sequence