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LRRC28 leucine rich repeat containing 28 [ Homo sapiens (human) ]

Gene ID: 123355, updated on 3-Apr-2024

Summary

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Official Symbol
LRRC28provided by HGNC
Official Full Name
leucine rich repeat containing 28provided by HGNC
Primary source
HGNC:HGNC:28355
See related
Ensembl:ENSG00000168904 AllianceGenome:HGNC:28355
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
Expression
Ubiquitous expression in testis (RPKM 2.7), liver (RPKM 2.0) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
15q26.3
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (99251481..99390729)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (97015255..97154521)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (99791686..99930934)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:99640383-99641189 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6864 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6865 Neighboring gene SYNM antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:99676969-99677470 Neighboring gene synemin Neighboring gene TTC23 antisense RNA 1 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr15:99694074-99694869 Neighboring gene tetratricopeptide repeat domain 23 Neighboring gene MPRA-validated peak2445 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:99754475-99754975 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr15:99758119-99759318 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10150 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6866 Neighboring gene heat shock protein 90 beta family member 2, pseudogene Neighboring gene heterogeneous nuclear ribonucleoprotein A1 pseudogene 62 Neighboring gene MPRA-validated peak2447 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10151 Neighboring gene uncharacterized LOC105371017 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:99942299-99942818 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:99942819-99943336 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:99944293-99944794 Neighboring gene long intergenic non-protein coding RNA 2244 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:99949649-99950148 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6867 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr15:99973380-99974579 Neighboring gene long intergenic non-protein coding RNA 3080

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. ARIH2 Is a Vif-Dependent Regulator of CUL5-Mediated APOBEC3G Degradation in HIV Infection. Hüttenhain R, et al. Cell Host Microbe, 2019 Jul 10. PMID 31253590, Free PMC Article
  2. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. Clark HF, et al. Genome Res, 2003 Oct. PMID 12975309, Free PMC Article
  3. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. Lamesch P, et al. Genomics, 2007 Mar. PMID 17207965, Free PMC Article
  4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. Huttlin EL, et al. Cell, 2015 Jul 16. PMID 26186194, Free PMC Article

See all (12) citations in PubMed

GeneRIFs: Gene References Into Functions

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

  • FLJ34269, FLJ45242, MGC24976

Gene Ontology Provided by GOA

Process Evidence Code Pubs
involved_in signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
leucine-rich repeat-containing protein 28

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_001284400.3 → NP_001271329.1  leucine-rich repeat-containing protein 28 isoform 2

    See identical proteins and their annotated locations for NP_001271329.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate exon in the 3' coding region, which results in a frameshift, compared to variant 1. The encoded isoform (2) has a distinct C-terminus and is shorter than isoform 1.
    Source sequence(s)
    AC037479, AY358082, DA787321
    Consensus CDS
    CCDS66873.1
    Related
    ENSP00000404520.2, ENST00000447360.6
    Conserved Domains (2) summary
    sd00033
    Location:43 → 66
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:43 → 100
    LRR_8; Leucine rich repeat

  2. NM_001321675.2 → NP_001308604.1  leucine-rich repeat-containing protein 28 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC022819, AC037479
    Consensus CDS
    CCDS10380.1
    UniProtKB/Swiss-Prot
    A8KA22, Q6UY49, Q6ZSS6, Q86X40
    Conserved Domains (2) summary
    sd00033
    Location:43 → 66
    LRR_RI; leucine-rich repeat [structural motif]
    cl26018
    Location:46 → 306
    NEL; C-terminal novel E3 ligase, LRR-interacting

  3. NM_001321676.2 → NP_001308605.1  leucine-rich repeat-containing protein 28 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC022819, AC037479
    Conserved Domains (2) summary
    sd00033
    Location:43 → 66
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:43 → 100
    LRR_8; Leucine rich repeat

  4. NM_001321677.2 → NP_001308606.1  leucine-rich repeat-containing protein 28 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC037479, AK295161, DA787321
    UniProtKB/TrEMBL
    B4DHL3
    Conserved Domains (2) summary
    sd00033
    Location:20 → 42
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:43 → 100
    LRR_8; Leucine rich repeat

  5. NM_001321678.2 → NP_001308607.1  leucine-rich repeat-containing protein 28 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC022819, AC037479
    UniProtKB/TrEMBL
    H0YKM4
    Conserved Domains (2) summary
    sd00033
    Location:22 → 44
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:20 → 101
    LRR_8; Leucine rich repeat

  6. NM_001321679.2 → NP_001308608.1  leucine-rich repeat-containing protein 28 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC022819, AC037479
    UniProtKB/TrEMBL
    B4DK22, Q8NB41
    Conserved Domains (2) summary
    PRK15370
    Location:5 → 152
    PRK15370; E3 ubiquitin-protein ligase SlrP; Provisional
    sd00031
    Location:5 → 27
    LRR_1; leucine-rich repeat [structural motif]

  7. NM_001321680.2 → NP_001308609.1  leucine-rich repeat-containing protein 28 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC022819, AC037479
    UniProtKB/TrEMBL
    B4DK22, Q8NB41
    Conserved Domains (2) summary
    PRK15370
    Location:5 → 152
    PRK15370; E3 ubiquitin-protein ligase SlrP; Provisional
    sd00031
    Location:5 → 27
    LRR_1; leucine-rich repeat [structural motif]

  8. NM_144598.5 → NP_653199.2  leucine-rich repeat-containing protein 28 isoform 1

    See identical proteins and their annotated locations for NP_653199.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC037479, BC047306
    Consensus CDS
    CCDS10380.1
    UniProtKB/Swiss-Prot
    A8KA22, Q6UY49, Q6ZSS6, Q86X40
    Related
    ENSP00000304923.3, ENST00000301981.8
    Conserved Domains (2) summary
    sd00033
    Location:43 → 66
    LRR_RI; leucine-rich repeat [structural motif]
    cl26018
    Location:46 → 306
    NEL; C-terminal novel E3 ligase, LRR-interacting

RNA

  1. NR_135753.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC037479, AK127177, AK296352, BC047306

  2. NR_135754.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC022819, AC037479

  3. NR_135755.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC022819, AC037479

  4. NR_135756.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC022819, AC037479

  5. NR_135757.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC022819, AC037479

  6. NR_135758.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC022819, AC037479

  7. NR_135759.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC022819, AC037479

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_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    99251481..99390729
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011521218.3 → XP_011519520.1  leucine-rich repeat-containing protein 28 isoform X1

    See identical proteins and their annotated locations for XP_011519520.1

    UniProtKB/Swiss-Prot
    A8KA22, Q6UY49, Q6ZSS6, Q86X40
    Conserved Domains (2) summary
    sd00033
    Location:43 → 66
    LRR_RI; leucine-rich repeat [structural motif]
    cl26018
    Location:46 → 306
    NEL; C-terminal novel E3 ligase, LRR-interacting

  2. XM_011521220.3 → XP_011519522.1  leucine-rich repeat-containing protein 28 isoform X2

    UniProtKB/TrEMBL
    H0YKM4
    Related
    ENSP00000452863.1, ENST00000561276.5
    Conserved Domains (2) summary
    sd00033
    Location:43 → 66
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:43 → 100
    LRR_8; Leucine rich repeat

  3. XM_047432145.1 → XP_047288101.1  leucine-rich repeat-containing protein 28 isoform X2

  4. XM_047432148.1 → XP_047288104.1  leucine-rich repeat-containing protein 28 isoform X6

  5. XM_017021914.2 → XP_016877403.1  leucine-rich repeat-containing protein 28 isoform X5

    Conserved Domains (2) summary
    sd00033
    Location:43 → 66
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:43 → 100
    LRR_8; Leucine rich repeat

  6. XM_011521221.4 → XP_011519523.1  leucine-rich repeat-containing protein 28 isoform X3

    Conserved Domains (2) summary
    sd00033
    Location:43 → 66
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:43 → 100
    LRR_8; Leucine rich repeat

  7. XM_006720389.5 → XP_006720452.1  leucine-rich repeat-containing protein 28 isoform X5

    Conserved Domains (2) summary
    sd00033
    Location:43 → 66
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:43 → 100
    LRR_8; Leucine rich repeat

  8. XM_047432146.1 → XP_047288102.1  leucine-rich repeat-containing protein 28 isoform X4

  9. XM_047432150.1 → XP_047288106.1  leucine-rich repeat-containing protein 28 isoform X7

    UniProtKB/TrEMBL
    Q8NB41

  10. XM_047432149.1 → XP_047288105.1  leucine-rich repeat-containing protein 28 isoform X7

    UniProtKB/TrEMBL
    Q8NB41

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    97015255..97154521
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054377274.1 → XP_054233249.1  leucine-rich repeat-containing protein 28 isoform X2

  2. XM_054377280.1 → XP_054233255.1  leucine-rich repeat-containing protein 28 isoform X6

  3. XM_054377279.1 → XP_054233254.1  leucine-rich repeat-containing protein 28 isoform X5

  4. XM_054377276.1 → XP_054233251.1  leucine-rich repeat-containing protein 28 isoform X3

  5. XM_054377278.1 → XP_054233253.1  leucine-rich repeat-containing protein 28 isoform X5

  6. XM_054377277.1 → XP_054233252.1  leucine-rich repeat-containing protein 28 isoform X4

  7. XM_054377273.1 → XP_054233248.1  leucine-rich repeat-containing protein 28 isoform X1

    UniProtKB/Swiss-Prot
    A8KA22, Q6UY49, Q6ZSS6, Q86X40

  8. XM_054377275.1 → XP_054233250.1  leucine-rich repeat-containing protein 28 isoform X2

  9. XM_054377282.1 → XP_054233257.1  leucine-rich repeat-containing protein 28 isoform X7

    UniProtKB/TrEMBL
    Q8NB41

  10. XM_054377281.1 → XP_054233256.1  leucine-rich repeat-containing protein 28 isoform X7

    UniProtKB/TrEMBL
    Q8NB41
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q86X40.1 GenPept UniProtKB/Swiss-Prot:Q86X40

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