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    LYRM1 LYR motif containing 1 [ Homo sapiens (human) ]

    Gene ID: 57149, updated on 27-Nov-2024

    Summary

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    Official Symbol
    LYRM1provided by HGNC
    Official Full Name
    LYR motif containing 1provided by HGNC
    Primary source
    HGNC:HGNC:25074
    See related
    Ensembl:ENSG00000102897 MIM:614709; AllianceGenome:HGNC:25074
    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
    A211C6.1
    Summary
    The protein encoded by this gene belongs to the mitochondrial leucine/tyrosine/arginine motif family of proteins. Proteins of this family are short polypeptides that contain a leucine/tyrosine/arginine motif near the N-terminus. This gene is widely expressed with high levels in omental adipose tissue of obese individuals. In adipose tissue, the protein is localized to the nucleus where it promotes preadipocyte proliferation and lowers the rate of apoptosis to regulate adipose tissue homeostasis. Overexpression of this gene in adipocytes causes abnormal mitochondrial morphology and mitochondrial dysfunction. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Nov 2014]
    Expression
    Ubiquitous expression in liver (RPKM 13.3), fat (RPKM 11.4) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See LYRM1 in Genome Data Viewer
    Location:
    16p12.3
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (20899882..20925006)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (20830796..20855920)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (20911204..20936328)

    Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene acyl-CoA synthetase medium chain family member 3 Neighboring gene RNA, U6 small nuclear 944, pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:20816990-20817935 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10541 Neighboring gene uncharacterized LOC105371121 Neighboring gene ERI1 exoribonuclease family member 2 Neighboring gene RNA exonuclease 5 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr16:20876915-20878114 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:20878222-20878722 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10543 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10544 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7246 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10545 Neighboring gene defective in cullin neddylation 1 domain containing 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10546 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:20911499-20912284 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:20912285-20913070 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr16:20982344-20983543 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:20985044-20985544 Neighboring gene dynein axonemal heavy chain 3 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7247 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:21059143-21059715 Neighboring gene uncharacterized LOC107984888 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10547 Neighboring gene Sharpr-MPRA regulatory region 1818 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7248 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7249 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:21170492-21170992 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10548 Neighboring gene lipid droplet assembly factor 1

    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. LYRM1, a novel gene promotes proliferation and inhibits apoptosis of preadipocytes. Qiu J, et al. Eur J Endocrinol, 2009 Feb. PMID 19022914
    2. Overexpression of LYRM1 induces mitochondrial impairment in 3T3-L1 adipocytes. Cao XG, et al. Mol Genet Metab, 2010 Dec. PMID 20826099
    3. LYRM1, a gene that promotes proliferation and inhibits apoptosis during heart development. Zhu C, et al. Molecules, 2010 Oct 11. PMID 20938407, Free PMC Article
    4. DNA microarray analysis of genes differentially expressed in adipocyte differentiation. Yin C, et al. J Biosci, 2014 Jun. PMID 24845505
    5. α-Lipoic acid ameliorates impaired glucose uptake in LYRM1 overexpressing 3T3-L1 adipocytes through the IRS-1/Akt signaling pathway. Qin ZY, et al. J Bioenerg Biomembr, 2012 Oct. PMID 22820890

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. alpha-LA protects 3T3-L1 adipocytes from LYRM1-induced insulin resistance partially via its capacity to restore mitochondrial function and/or increase phosphorylation of IRS-1 and Akt.
      Title: α-Lipoic acid ameliorates impaired glucose uptake in LYRM1 overexpressing 3T3-L1 adipocytes through the IRS-1/Akt signaling pathway.
    2. overexpression of LYRM1 caused mitochondrial dysfunction in adipocytes, which might be responsible for the development of LYRM1-induced insulin resistance
      Title: Overexpression of LYRM1 induces mitochondrial impairment in 3T3-L1 adipocytes.
    3. Data suggest that LYRM1 might have the potential to modulate cell growth, apoptosis, and heart development.
      Title: LYRM1, a gene that promotes proliferation and inhibits apoptosis during heart development.
    4. Observational study of gene-disease association. (HuGE Navigator)
      Title: Genetic variants in nuclear-encoded mitochondrial genes influence AIDS progression.
    5. By increasing cell proliferation and lowering the rate of apoptosis, LYRM1 has the potential to modulate the size of the preadipocyte pool and influence adipose tissue homeostasis
      Title: LYRM1, a novel gene promotes proliferation and inhibits apoptosis of preadipocytes.
    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)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Component Evidence Code Pubs
    located_in midbody IDA
    Inferred from Direct Assay
    more info
    		  
    located_in mitochondrion HTP PubMed 
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  

    General protein information

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    Preferred Names
    LYR motif-containing protein 1

    NCBI Reference Sequences (RefSeq)

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    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_001128301.3 → NP_001121773.1  LYR motif-containing protein 1 isoform 1

      See identical proteins and their annotated locations for NP_001121773.1

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Consensus CDS
      CCDS10593.1
      UniProtKB/Swiss-Prot
      B2R4M5, O43325
      Related
      ENSP00000219168.4, ENST00000219168.8
      Conserved Domains (1) summary
      cd20261
      Location:8 → 83
      Complex1_LYR_LYRM1; LYR (leucine-tyrosine-arginine) motif found in LYR motif-containing protein 1 (LYRM1) and similar proteins

    2. NM_001128302.3 → NP_001121774.1  LYR motif-containing protein 1 isoform 1

      See identical proteins and their annotated locations for NP_001121774.1

      Status: REVIEWED

      Source sequence(s)
      AL359616, BI547471, CX163936
      Consensus CDS
      CCDS10593.1
      UniProtKB/Swiss-Prot
      B2R4M5, O43325
      Related
      ENSP00000457333.1, ENST00000567954.6
      Conserved Domains (1) summary
      cd20261
      Location:8 → 83
      Complex1_LYR_LYRM1; LYR (leucine-tyrosine-arginine) motif found in LYR motif-containing protein 1 (LYRM1) and similar proteins

    3. NM_001302835.2 → NP_001289764.1  LYR motif-containing protein 1 isoform 1

      See identical proteins and their annotated locations for NP_001289764.1

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Consensus CDS
      CCDS10593.1
      UniProtKB/Swiss-Prot
      B2R4M5, O43325
      Related
      ENSP00000379367.2, ENST00000396052.3
      Conserved Domains (1) summary
      cd20261
      Location:8 → 83
      Complex1_LYR_LYRM1; LYR (leucine-tyrosine-arginine) motif found in LYR motif-containing protein 1 (LYRM1) and similar proteins

    4. NM_001302836.2 → NP_001289765.1  LYR motif-containing protein 1 isoform 1

      See identical proteins and their annotated locations for NP_001289765.1

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Consensus CDS
      CCDS10593.1
      UniProtKB/Swiss-Prot
      B2R4M5, O43325
      Related
      ENSP00000454551.1, ENST00000569023.5
      Conserved Domains (1) summary
      cd20261
      Location:8 → 83
      Complex1_LYR_LYRM1; LYR (leucine-tyrosine-arginine) motif found in LYR motif-containing protein 1 (LYRM1) and similar proteins

    5. NM_001369631.1 → NP_001356560.1  LYR motif-containing protein 1 isoform 2

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Conserved Domains (1) summary
      pfam05347
      Location:7 → 72
      Complex1_LYR; Complex 1 protein (LYR family)

    6. NM_001369632.1 → NP_001356561.1  LYR motif-containing protein 1 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Consensus CDS
      CCDS10593.1
      UniProtKB/Swiss-Prot
      B2R4M5, O43325
      Conserved Domains (1) summary
      cd20261
      Location:8 → 83
      Complex1_LYR_LYRM1; LYR (leucine-tyrosine-arginine) motif found in LYR motif-containing protein 1 (LYRM1) and similar proteins

    7. NM_001369633.1 → NP_001356562.1  LYR motif-containing protein 1 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Consensus CDS
      CCDS10593.1
      UniProtKB/Swiss-Prot
      B2R4M5, O43325
      Conserved Domains (1) summary
      cd20261
      Location:8 → 83
      Complex1_LYR_LYRM1; LYR (leucine-tyrosine-arginine) motif found in LYR motif-containing protein 1 (LYRM1) and similar proteins

    8. NM_001369634.1 → NP_001356563.1  LYR motif-containing protein 1 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Consensus CDS
      CCDS10593.1
      UniProtKB/Swiss-Prot
      B2R4M5, O43325
      Conserved Domains (1) summary
      cd20261
      Location:8 → 83
      Complex1_LYR_LYRM1; LYR (leucine-tyrosine-arginine) motif found in LYR motif-containing protein 1 (LYRM1) and similar proteins

    9. NM_001369635.1 → NP_001356564.1  LYR motif-containing protein 1 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Consensus CDS
      CCDS10593.1
      UniProtKB/Swiss-Prot
      B2R4M5, O43325
      Conserved Domains (1) summary
      cd20261
      Location:8 → 83
      Complex1_LYR_LYRM1; LYR (leucine-tyrosine-arginine) motif found in LYR motif-containing protein 1 (LYRM1) and similar proteins

    10. NM_001369636.1 → NP_001356565.1  LYR motif-containing protein 1 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Consensus CDS
      CCDS10593.1
      UniProtKB/Swiss-Prot
      B2R4M5, O43325
      Conserved Domains (1) summary
      cd20261
      Location:8 → 83
      Complex1_LYR_LYRM1; LYR (leucine-tyrosine-arginine) motif found in LYR motif-containing protein 1 (LYRM1) and similar proteins

    11. NM_001369637.1 → NP_001356566.1  LYR motif-containing protein 1 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Consensus CDS
      CCDS10593.1
      UniProtKB/Swiss-Prot
      B2R4M5, O43325
      Conserved Domains (1) summary
      cd20261
      Location:8 → 83
      Complex1_LYR_LYRM1; LYR (leucine-tyrosine-arginine) motif found in LYR motif-containing protein 1 (LYRM1) and similar proteins

    12. NM_001369638.1 → NP_001356567.1  LYR motif-containing protein 1 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Consensus CDS
      CCDS10593.1
      UniProtKB/Swiss-Prot
      B2R4M5, O43325
      Conserved Domains (1) summary
      cd20261
      Location:8 → 83
      Complex1_LYR_LYRM1; LYR (leucine-tyrosine-arginine) motif found in LYR motif-containing protein 1 (LYRM1) and similar proteins

    13. NM_001369639.1 → NP_001356568.1  LYR motif-containing protein 1 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Consensus CDS
      CCDS10593.1
      UniProtKB/Swiss-Prot
      B2R4M5, O43325
      Conserved Domains (1) summary
      cd20261
      Location:8 → 83
      Complex1_LYR_LYRM1; LYR (leucine-tyrosine-arginine) motif found in LYR motif-containing protein 1 (LYRM1) and similar proteins

    14. NM_001369641.1 → NP_001356570.1  LYR motif-containing protein 1 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Consensus CDS
      CCDS10593.1
      UniProtKB/Swiss-Prot
      B2R4M5, O43325
      Conserved Domains (1) summary
      cd20261
      Location:8 → 83
      Complex1_LYR_LYRM1; LYR (leucine-tyrosine-arginine) motif found in LYR motif-containing protein 1 (LYRM1) and similar proteins

    15. NM_001369642.1 → NP_001356571.1  LYR motif-containing protein 1 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Consensus CDS
      CCDS10593.1
      UniProtKB/Swiss-Prot
      B2R4M5, O43325
      Conserved Domains (1) summary
      cd20261
      Location:8 → 83
      Complex1_LYR_LYRM1; LYR (leucine-tyrosine-arginine) motif found in LYR motif-containing protein 1 (LYRM1) and similar proteins

    16. NM_001369644.1 → NP_001356573.1  LYR motif-containing protein 1 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Consensus CDS
      CCDS10593.1
      UniProtKB/Swiss-Prot
      B2R4M5, O43325
      Conserved Domains (1) summary
      cd20261
      Location:8 → 83
      Complex1_LYR_LYRM1; LYR (leucine-tyrosine-arginine) motif found in LYR motif-containing protein 1 (LYRM1) and similar proteins

    17. NM_001369645.1 → NP_001356574.1  LYR motif-containing protein 1 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Consensus CDS
      CCDS10593.1
      UniProtKB/Swiss-Prot
      B2R4M5, O43325
      Conserved Domains (1) summary
      cd20261
      Location:8 → 83
      Complex1_LYR_LYRM1; LYR (leucine-tyrosine-arginine) motif found in LYR motif-containing protein 1 (LYRM1) and similar proteins

    18. NM_020424.5 → NP_065157.1  LYR motif-containing protein 1 isoform 1

      See identical proteins and their annotated locations for NP_065157.1

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Consensus CDS
      CCDS10593.1
      UniProtKB/Swiss-Prot
      B2R4M5, O43325
      Related
      ENSP00000454826.1, ENST00000568663.5
      Conserved Domains (1) summary
      cd20261
      Location:8 → 83
      Complex1_LYR_LYRM1; LYR (leucine-tyrosine-arginine) motif found in LYR motif-containing protein 1 (LYRM1) and similar proteins

    RNA

    1. NR_126516.2 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC002394

    2. NR_126520.2 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC002394
      Related
      ENST00000412082.6

    3. NR_126521.2 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC002394

    4. NR_126527.2 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC002394

    5. NR_126528.2 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC002394

    6. NR_161425.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC002394

    7. NR_161426.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC002394

    8. NR_161427.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC002394

    9. NR_161429.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC002394

    10. NR_161430.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC002394

    11. NR_161431.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC002394

    12. NR_161432.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC002394

    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_000016.10 Reference GRCh38.p14 Primary Assembly

      Range
      20899882..20925006
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017023475.2 → XP_016878964.2  LYR motif-containing protein 1 isoform X1

    2. XM_047434371.1 → XP_047290327.1  LYR motif-containing protein 1 isoform X2

    3. XM_017023476.2 → XP_016878965.2  LYR motif-containing protein 1 isoform X3

    4. XM_011545908.3 → XP_011544210.1  LYR motif-containing protein 1 isoform X4

      See identical proteins and their annotated locations for XP_011544210.1

      Conserved Domains (1) summary
      pfam05347
      Location:7 → 72
      Complex1_LYR; Complex 1 protein (LYR family)

    5. XM_047434379.1 → XP_047290335.1  LYR motif-containing protein 1 isoform X4

    6. XM_047434374.1 → XP_047290330.1  LYR motif-containing protein 1 isoform X4

    7. XM_011545901.3 → XP_011544203.1  LYR motif-containing protein 1 isoform X4

      See identical proteins and their annotated locations for XP_011544203.1

      Conserved Domains (1) summary
      pfam05347
      Location:7 → 72
      Complex1_LYR; Complex 1 protein (LYR family)

    8. XM_047434375.1 → XP_047290331.1  LYR motif-containing protein 1 isoform X4

    9. XM_047434376.1 → XP_047290332.1  LYR motif-containing protein 1 isoform X4

    10. XM_017023478.2 → XP_016878967.1  LYR motif-containing protein 1 isoform X4

      Conserved Domains (1) summary
      pfam05347
      Location:7 → 72
      Complex1_LYR; Complex 1 protein (LYR family)

    11. XM_047434378.1 → XP_047290334.1  LYR motif-containing protein 1 isoform X4

    12. XM_011545900.3 → XP_011544202.1  LYR motif-containing protein 1 isoform X4

      See identical proteins and their annotated locations for XP_011544202.1

      Conserved Domains (1) summary
      pfam05347
      Location:7 → 72
      Complex1_LYR; Complex 1 protein (LYR family)

    13. XM_047434373.1 → XP_047290329.1  LYR motif-containing protein 1 isoform X4

    14. XM_047434380.1 → XP_047290336.1  LYR motif-containing protein 1 isoform X5

      UniProtKB/Swiss-Prot
      B2R4M5, O43325

    15. XM_047434372.1 → XP_047290328.1  LYR motif-containing protein 1 isoform X4

    16. XM_047434377.1 → XP_047290333.1  LYR motif-containing protein 1 isoform X4

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060940.1 Alternate T2T-CHM13v2.0

      Range
      20830796..20855920
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054313507.1 → XP_054169482.1  LYR motif-containing protein 1 isoform X1

    2. XM_054313508.1 → XP_054169483.1  LYR motif-containing protein 1 isoform X2

    3. XM_054313509.1 → XP_054169484.1  LYR motif-containing protein 1 isoform X3

    4. XM_054313517.1 → XP_054169492.1  LYR motif-containing protein 1 isoform X4

    5. XM_054313514.1 → XP_054169489.1  LYR motif-containing protein 1 isoform X4

    6. XM_054313511.1 → XP_054169486.1  LYR motif-containing protein 1 isoform X4

    7. XM_054313515.1 → XP_054169490.1  LYR motif-containing protein 1 isoform X4

    8. XM_054313510.1 → XP_054169485.1  LYR motif-containing protein 1 isoform X4

    9. XM_054313513.1 → XP_054169488.1  LYR motif-containing protein 1 isoform X4

    10. XM_054313518.1 → XP_054169493.1  LYR motif-containing protein 1 isoform X5

      UniProtKB/Swiss-Prot
      B2R4M5, O43325

    11. XM_054313512.1 → XP_054169487.1  LYR motif-containing protein 1 isoform X4

    12. XM_054313516.1 → XP_054169491.1  LYR motif-containing protein 1 isoform X4

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O43325.1 GenPept UniProtKB/Swiss-Prot:O43325

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