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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
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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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