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    LRRC49 leucine rich repeat containing 49 [ Homo sapiens (human) ]

    Gene ID: 54839, updated on 9-Dec-2024

    Summary

    Official Symbol
    LRRC49provided by HGNC
    Official Full Name
    leucine rich repeat containing 49provided by HGNC
    Primary source
    HGNC:HGNC:25965
    See related
    Ensembl:ENSG00000137821 MIM:620497; AllianceGenome:HGNC:25965
    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
    Also known as
    PGs4; CSTPP2
    Summary
    Located in centriolar satellite. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in heart (RPKM 8.5), testis (RPKM 7.2) and 19 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See LRRC49 in Genome Data Viewer
    Location:
    15q23
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (70853378..71053658)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (68676342..68876951)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (71145717..71345997)

    Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene uveal autoantigen with coiled-coil domains and ankyrin repeats Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:71002570-71003070 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:71005595-71006134 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:71010983-71011484 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6609 Neighboring gene ribosomal protein L29 pseudogene 30 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:71145885-71146386 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:71163033-71163588 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:71163589-71164146 Neighboring gene La ribonucleoprotein 6, translational regulator Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9700 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9701 Neighboring gene ReSE screen-validated silencer GRCh37_chr15:71170236-71170412 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:71184427-71185125 Neighboring gene keratin 8 pseudogene 9 Neighboring gene THAP domain containing 10 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:71281950-71282450 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:71282451-71282951 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:71315600-71316198 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr15:71364462-71365661 Neighboring gene uncharacterized LOC105370886 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr15:71377897-71378512 Neighboring gene ribosomal protein L5 pseudogene 3

    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

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ20156

    Gene Ontology Provided by GOA

    Component Evidence Code Pubs
    located_in centriolar satellite IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in microtubule IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    leucine-rich repeat-containing protein 49
    Names
    centriolar satellite-associated tubulin polyglutamylase complex regulator 2
    centriolar satellite-associated tubulin polyglutamylation protein 2
    polyglutamylase subunit 4
    tubulin polyglutamylase complex subunit 4

    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_001199017.3NP_001185946.1  leucine-rich repeat-containing protein 49 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AC013752, AC084703, AC090868
      Consensus CDS
      CCDS58376.1
      UniProtKB/TrEMBL
      B7Z7G0
      Related
      ENSP00000453273.1, ENST00000560369.5
      Conserved Domains (3) summary
      sd00033
      Location:119140
      LRR_RI; leucine-rich repeat [structural motif]
      pfam12799
      Location:163203
      LRR_4; Leucine Rich repeats (2 copies)
      pfam13855
      Location:206261
      LRR_8; Leucine rich repeat
    2. NM_001199018.3NP_001185947.1  leucine-rich repeat-containing protein 49 isoform 3

      See identical proteins and their annotated locations for NP_001185947.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate splice site and contains an alternate exon in the 5' region, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (3) has a distinct N-terminus and is shorter than isoform 1.
      Source sequence(s)
      AC013752, AC084703, AC090868
      Consensus CDS
      CCDS55971.1
      UniProtKB/TrEMBL
      B7Z7G0
      Related
      ENSP00000414065.2, ENST00000443425.6
      Conserved Domains (3) summary
      sd00033
      Location:7091
      LRR_RI; leucine-rich repeat [structural motif]
      pfam12799
      Location:114154
      LRR_4; Leucine Rich repeats (2 copies)
      pfam13855
      Location:157212
      LRR_8; Leucine rich repeat
    3. NM_001284357.2NP_001271286.1  leucine-rich repeat-containing protein 49 isoform 4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR and contains multiple differences in the 5' coding region, compared to variant 1, including initiation of translation at an alternate start codon. The encoded isoform (4) has a distinct N-terminus and is shorter than isoform 1.
      Source sequence(s)
      AC013752, AC084703, AC090868
      Consensus CDS
      CCDS61694.1
      UniProtKB/TrEMBL
      B7Z7G0
      Related
      ENSP00000439600.2, ENST00000544974.6
      Conserved Domains (3) summary
      sd00033
      Location:104125
      LRR_RI; leucine-rich repeat [structural motif]
      pfam12799
      Location:148188
      LRR_4; Leucine Rich repeats (2 copies)
      pfam13855
      Location:191246
      LRR_8; Leucine rich repeat
    4. NM_001363732.2NP_001350661.1  leucine-rich repeat-containing protein 49 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC013752, AC084703, AC090868
      Consensus CDS
      CCDS86472.1
      UniProtKB/TrEMBL
      H0YKE9, H0YNV5
      Related
      ENSP00000454170.1, ENST00000560691.5
    5. NM_017691.5NP_060161.2  leucine-rich repeat-containing protein 49 isoform 2

      See identical proteins and their annotated locations for NP_060161.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. The encoded isoform (2) is shorter compared to isoform 1.
      Source sequence(s)
      AC013752, AC084703, AC090868
      Consensus CDS
      CCDS32282.1
      UniProtKB/Swiss-Prot
      B3KVX1, B7Z366, F5H1J4, G5E9T5, H0YLN4, Q8IUZ0, Q9NXM6
      UniProtKB/TrEMBL
      B7Z7G0
      Related
      ENSP00000260382.4, ENST00000260382.10
      Conserved Domains (2) summary
      sd00033
      Location:114135
      LRR_RI; leucine-rich repeat [structural motif]
      NF033189
      Location:69275
      internalin_A; class 1 internalin InlA

    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_000015.10 Reference GRCh38.p14 Primary Assembly

      Range
      70853378..71053658
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060939.1 Alternate T2T-CHM13v2.0

      Range
      68676342..68876951
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)