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    PACRGL parkin coregulated like [ Homo sapiens (human) ]

    Gene ID: 133015, updated on 3-Apr-2024

    Summary

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    Official Symbol
    PACRGLprovided by HGNC
    Official Full Name
    parkin coregulated likeprovided by HGNC
    Primary source
    HGNC:HGNC:28442
    See related
    Ensembl:ENSG00000163138 AllianceGenome:HGNC:28442
    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
    C4orf28
    Expression
    Broad expression in brain (RPKM 3.7), testis (RPKM 3.2) and 24 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    Location:
    4p15.31
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (20696282..20767373)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (20677960..20749010)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (20697905..20754523)

    Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene slit guidance ligand 2 Neighboring gene NANOG hESC enhancer GRCh37_chr4:20590873-20591475 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:20618190-20618690 Neighboring gene microRNA 218-1 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr4:20631231-20631937 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:20634775-20635276 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:20635277-20635776 Neighboring gene uncharacterized LOC105374515 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:20675647-20675822 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21365 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_77676 Neighboring gene potassium voltage-gated channel interacting protein 4 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_77702 Neighboring gene Sharpr-MPRA regulatory region 6369 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_77709 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:21305572-21306072 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr4:21367838-21368378 Neighboring gene uncharacterized LOC124900677 Neighboring gene microRNA 7978

    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. Crystal structure of human PACRG in complex with MEIG1 reveals roles in axoneme formation and tubulin binding. Khan N, et al. Structure, 2021 Jun 3. PMID 33529594, Free PMC Article
    2. Exosomal circPACRGL promotes progression of colorectal cancer via the miR-142-3p/miR-506-3p- TGF-β1 axis. Shang A, et al. Mol Cancer, 2020 Jul 27. PMID 32713345, Free PMC Article
    3. DCAF8, a novel MuRF1 interaction partner, promotes muscle atrophy. Nowak M, et al. J Cell Sci, 2019 Sep 6. PMID 31391242
    4. Phospho-tyrosine dependent protein-protein interaction network. Grossmann A, et al. Mol Syst Biol, 2015 Mar 26. PMID 25814554, Free PMC Article
    5. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. Hillier LW, et al. Nature, 2005 Apr 7. PMID 15815621

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Exosomal circPACRGL promotes progression of colorectal cancer via the miR-142-3p/miR-506-3p- TGF-beta1 axis.
      Title: Exosomal circPACRGL promotes progression of colorectal cancer via the miR-142-3p/miR-506-3p- TGF-β1 axis.
    Submit: New GeneRIF Correction

    Phenotypes

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    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

    • MGC29898

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    PACRG-like protein
    Names
    PARK2 co-regulated like
    PARK2 coregulated like

    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_001130727.3 → NP_001124199.1  PACRG-like protein isoform 2

      See identical proteins and their annotated locations for NP_001124199.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks three consecutive exons in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AC104065, BU674750, BX104331
      Consensus CDS
      CCDS47034.1
      UniProtKB/TrEMBL
      D6RF67
      Related
      ENSP00000415832.2, ENST00000444671.6
      Conserved Domains (1) summary
      pfam10274
      Location:64 → 120
      ParcG; Parkin co-regulated protein

    2. NM_001258345.3 → NP_001245274.1  PACRG-like protein isoform 3

      See identical proteins and their annotated locations for NP_001245274.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) contains an alternate exon in the 3' coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (3) is longer than isoform 1.
      Source sequence(s)
      AC104065, AK291544, BM763154, BU674750, BX104331, CF121351, DC339941
      Consensus CDS
      CCDS58895.1
      UniProtKB/Swiss-Prot
      B2RDB9, B4DFF8, B4DMN7, Q8N7B6, Q8TBA8
      UniProtKB/TrEMBL
      A8K679
      Related
      ENSP00000423881.1, ENST00000503585.6
      Conserved Domains (1) summary
      pfam10274
      Location:78 → 245
      ParcG; Parkin co-regulated protein

    3. NM_001258346.3 → NP_001245275.1  PACRG-like protein isoform 4

      See identical proteins and their annotated locations for NP_001245275.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) has multiple differences compared to variant 1. The encoded isoform (4) is shorter than isoform 1.
      Source sequence(s)
      AC104065, AK294077, BU674750, BX104331, CF121351
      Consensus CDS
      CCDS58896.1
      UniProtKB/Swiss-Prot
      Q8N7B6
      Related
      ENSP00000425461.1, ENST00000502374.5
      Conserved Domains (1) summary
      pfam10274
      Location:70 → 148
      ParcG; Parkin co-regulated protein

    4. NM_001317849.3 → NP_001304778.1  PACRG-like protein isoform 5

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) differs in its 5' UTR and lacks two consecutive exons in the central coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (5) is shorter than isoform 1. Variants 6-10 all encode the same isoform (5).
      Source sequence(s)
      AC104065, AK291544, BU674750, BX104331, BX344401, CF121351, DC339941
      Consensus CDS
      CCDS82912.1
      UniProtKB/TrEMBL
      D6RAM4, D6RGK2
      Related
      ENSP00000426286.1, ENST00000513459.5
      Conserved Domains (1) summary
      pfam10274
      Location:70 → 165
      ParcG; Parkin co-regulated protein

    5. NM_001330745.2 → NP_001317674.1  PACRG-like protein isoform 5

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) lacks two consecutive exons in the central coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (5) is shorter than isoform 1.
      Source sequence(s)
      AC104065, BC023002, BU674750, BX104331, CF121351, DC339941
      Consensus CDS
      CCDS82912.1
      UniProtKB/TrEMBL
      D6RAM4, D6RGK2

    6. NM_001330746.2 → NP_001317675.1  PACRG-like protein isoform 5

      Status: VALIDATED

      Description
      Transcript Variant: This variant (8) differs in its 5' UTR and lacks two consecutive exons in the central coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (5) is shorter than isoform 1. Variants 6-10 all encode the same isoform (5).
      Source sequence(s)
      AC104065, AL541740, BC023002, BU674750, BX104331, CF121351, DC339941
      Consensus CDS
      CCDS82912.1
      UniProtKB/TrEMBL
      D6RAM4, D6RGK2

    7. NM_001330747.2 → NP_001317676.1  PACRG-like protein isoform 5

      Status: VALIDATED

      Description
      Transcript Variant: This variant (9) differs in its 5' UTR and lacks two consecutive exons in the central coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (5) is shorter than isoform 1. Variants 6-10 all encode the same isoform (5).
      Source sequence(s)
      AC104065, AK307092, BC023002, BU674750, BX104331, CF121351, DC339941
      Consensus CDS
      CCDS82912.1
      UniProtKB/TrEMBL
      D6RAM4, D6RGK2

    8. NM_001330748.2 → NP_001317677.1  PACRG-like protein isoform 5

      Status: VALIDATED

      Description
      Transcript Variant: This variant (10) differs in its 5' UTR and lacks two consecutive exons in the central coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (5) is shorter than isoform 1. Variants 6-10 all encode the same isoform (5).
      Source sequence(s)
      AC104065, AK307786, BC023002, BU674750, BX104331, CF121351
      Consensus CDS
      CCDS82912.1
      UniProtKB/TrEMBL
      D6RAM4, D6RGK2
      Related
      ENSP00000422394.1, ENST00000513861.5

    9. NM_145048.5 → NP_659485.1  PACRG-like protein isoform 1

      See identical proteins and their annotated locations for NP_659485.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes isoform 1.
      Source sequence(s)
      AC104065, BC023002, BU674750, BX104331, CF121351, DC339941
      Consensus CDS
      CCDS3427.1
      UniProtKB/TrEMBL
      D6RC13
      Related
      ENSP00000354171.4, ENST00000360916.9
      Conserved Domains (1) summary
      pfam10274
      Location:78 → 218
      ParcG; Parkin co-regulated protein

    RNA

    1. NR_047661.3 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) has multiple differences compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC104065, AK307355, BG741791, BU674750, BX104331, CF121351, DC339941

    2. NR_133933.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (11) uses an alternate 5' and 3' exon structure, and contains an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay.
      Source sequence(s)
      AK098692, AK291544, AW050492, BM763154

    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_000004.12 Reference GRCh38.p14 Primary Assembly

      Range
      20696282..20767373
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047449617.1 → XP_047305573.1  PACRG-like protein isoform X2

    2. XM_011513786.4 → XP_011512088.1  PACRG-like protein isoform X2

      See identical proteins and their annotated locations for XP_011512088.1

      UniProtKB/TrEMBL
      A8K679
      Conserved Domains (1) summary
      pfam10274
      Location:126 → 293
      ParcG; Parkin co-regulated protein

    3. XM_047449620.1 → XP_047305576.1  PACRG-like protein isoform X4

    4. XM_047449619.1 → XP_047305575.1  PACRG-like protein isoform X3

    5. XM_047449628.1 → XP_047305584.1  PACRG-like protein isoform X11

    6. XM_047449621.1 → XP_047305577.1  PACRG-like protein isoform X5

    7. XM_047449626.1 → XP_047305582.1  PACRG-like protein isoform X8

    8. XM_047449624.1 → XP_047305580.1  PACRG-like protein isoform X7

    9. XM_011513784.2 → XP_011512086.1  PACRG-like protein isoform X1

      See identical proteins and their annotated locations for XP_011512086.1

      Conserved Domains (1) summary
      pfam10274
      Location:126 → 249
      ParcG; Parkin co-regulated protein

    10. XM_047449618.1 → XP_047305574.1  PACRG-like protein isoform X2

    11. XM_017007747.3 → XP_016863236.1  PACRG-like protein isoform X4

      UniProtKB/TrEMBL
      D6R9N9
      Related
      ENSP00000423499.1, ENST00000510051.5
      Conserved Domains (1) summary
      pfam10274
      Location:126 → 266
      ParcG; Parkin co-regulated protein

    12. XM_047449622.1 → XP_047305578.1  PACRG-like protein isoform X5

    13. XM_047449625.1 → XP_047305581.1  PACRG-like protein isoform X8

    14. XM_017007748.3 → XP_016863237.1  PACRG-like protein isoform X6

      UniProtKB/Swiss-Prot
      B2RDB9, B4DFF8, B4DMN7, Q8N7B6, Q8TBA8
      UniProtKB/TrEMBL
      A8K679
      Conserved Domains (1) summary
      pfam10274
      Location:78 → 245
      ParcG; Parkin co-regulated protein

    15. XM_047449627.1 → XP_047305583.1  PACRG-like protein isoform X10

      Related
      ENSP00000295290.8, ENST00000295290.12

    16. XM_047449623.1 → XP_047305579.1  PACRG-like protein isoform X6

      UniProtKB/Swiss-Prot
      B2RDB9, B4DFF8, B4DMN7, Q8N7B6, Q8TBA8
      Related
      ENSP00000423914.2, ENST00000471979.6

    17. XM_011513805.4 → XP_011512107.1  PACRG-like protein isoform X10

      See identical proteins and their annotated locations for XP_011512107.1

      UniProtKB/TrEMBL
      D6RC13
      Related
      ENSP00000425938.1, ENST00000507634.5
      Conserved Domains (1) summary
      pfam10274
      Location:78 → 218
      ParcG; Parkin co-regulated protein

    18. XM_011513804.2 → XP_011512106.1  PACRG-like protein isoform X9

      Conserved Domains (1) summary
      pfam10274
      Location:70 → 148
      ParcG; Parkin co-regulated protein

    19. XM_017007759.3 → XP_016863248.1  PACRG-like protein isoform X12

      UniProtKB/TrEMBL
      D6RF67
      Conserved Domains (1) summary
      pfam10274
      Location:64 → 120
      ParcG; Parkin co-regulated protein

    RNA

    1. XR_007096362.1 RNA Sequence

    2. XR_925302.3 RNA Sequence

    3. XR_925303.4 RNA Sequence

    4. XR_925306.3 RNA Sequence

    5. XR_001741142.3 RNA Sequence

    6. XR_007096367.1 RNA Sequence

    7. XR_007096368.1 RNA Sequence

    8. XR_007096363.1 RNA Sequence

    9. XR_007096365.1 RNA Sequence

    10. XR_007096364.1 RNA Sequence

    11. XR_007096366.1 RNA Sequence

    12. XR_007096369.1 RNA Sequence

    13. XR_007096370.1 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060928.1 Alternate T2T-CHM13v2.0

      Range
      20677960..20749010
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054348948.1 → XP_054204923.1  PACRG-like protein isoform X2

    2. XM_054348947.1 → XP_054204922.1  PACRG-like protein isoform X2

    3. XM_054348951.1 → XP_054204926.1  PACRG-like protein isoform X4

    4. XM_054348950.1 → XP_054204925.1  PACRG-like protein isoform X3

    5. XM_054348963.1 → XP_054204938.1  PACRG-like protein isoform X11

    6. XM_054348952.1 → XP_054204927.1  PACRG-like protein isoform X5

    7. XM_054348959.1 → XP_054204934.1  PACRG-like protein isoform X8

    8. XM_054348957.1 → XP_054204932.1  PACRG-like protein isoform X7

    9. XM_054348946.1 → XP_054204921.1  PACRG-like protein isoform X1

    10. XM_054348949.1 → XP_054204924.1  PACRG-like protein isoform X2

    11. XM_054348953.1 → XP_054204928.1  PACRG-like protein isoform X4

    12. XM_054348954.1 → XP_054204929.1  PACRG-like protein isoform X5

    13. XM_054348958.1 → XP_054204933.1  PACRG-like protein isoform X8

    14. XM_054348955.1 → XP_054204930.1  PACRG-like protein isoform X6

      UniProtKB/Swiss-Prot
      B2RDB9, B4DFF8, B4DMN7, Q8N7B6, Q8TBA8

    15. XM_054348961.1 → XP_054204936.1  PACRG-like protein isoform X10

    16. XM_054348956.1 → XP_054204931.1  PACRG-like protein isoform X6

      UniProtKB/Swiss-Prot
      B2RDB9, B4DFF8, B4DMN7, Q8N7B6, Q8TBA8

    17. XM_054348962.1 → XP_054204937.1  PACRG-like protein isoform X10

    18. XM_054348960.1 → XP_054204935.1  PACRG-like protein isoform X9

    19. XM_054348964.1 → XP_054204939.1  PACRG-like protein isoform X12

    RNA

    1. XR_008486914.1 RNA Sequence

    2. XR_008486912.1 RNA Sequence

    3. XR_008486913.1 RNA Sequence

    4. XR_008486915.1 RNA Sequence

    5. XR_008486917.1 RNA Sequence

    6. XR_008486921.1 RNA Sequence

    7. XR_008486922.1 RNA Sequence

    8. XR_008486916.1 RNA Sequence

    9. XR_008486919.1 RNA Sequence

    10. XR_008486918.1 RNA Sequence

    11. XR_008486920.1 RNA Sequence

    12. XR_008486923.1 RNA Sequence

    13. XR_008486924.1 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8N7B6.2 GenPept UniProtKB/Swiss-Prot:Q8N7B6

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