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    PATL2 PAT1 homolog 2 [ Homo sapiens (human) ]

    Gene ID: 197135, updated on 27-Nov-2024

    Summary

    Official Symbol
    PATL2provided by HGNC
    Official Full Name
    PAT1 homolog 2provided by HGNC
    Primary source
    HGNC:HGNC:33630
    See related
    Ensembl:ENSG00000229474 MIM:614661; AllianceGenome:HGNC:33630
    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
    OOMD4; Pat1a; OZEMA4; hPat1a
    Summary
    Predicted to enable RNA binding activity. Predicted to be involved in P-body assembly; deadenylation-dependent decapping of nuclear-transcribed mRNA; and negative regulation of translation. Predicted to act upstream of or within negative regulation of cytoplasmic mRNA processing body assembly. Located in cytoplasm. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in spleen (RPKM 2.6), lymph node (RPKM 2.5) and 20 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See PATL2 in Genome Data Viewer
    Location:
    15q21.1
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (44665732..44711390, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (42473704..42519366, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (44957930..45003588, complement)

    Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:44828013-44828800 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6395 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6396 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6397 Neighboring gene EIF3J divergent transcript Neighboring gene eukaryotic translation initiation factor 3 subunit J Neighboring gene SPG11 vesicle trafficking associated, spatacsin Neighboring gene ReSE screen-validated silencer GRCh37_chr15:44874604-44874775 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6398 Neighboring gene ReSE screen-validated silencer GRCh37_chr15:44879793-44880004 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9340 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9341 Neighboring gene ReSE screen-validated silencer GRCh37_chr15:44936676-44936780 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9342 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:44955204-44956160 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9344 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9345 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9346 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9347 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:45003536-45004198 Neighboring gene Sharpr-MPRA regulatory region 1044 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:45020107-45021094 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:45021095-45022080 Neighboring gene microRNA 10393 Neighboring gene beta-2-microglobulin Neighboring gene ring finger protein 4B, pseudogene

    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

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables RNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in P-body assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in deadenylation-dependent decapping of nuclear-transcribed mRNA IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in negative regulation of cytoplasmic mRNA processing body assembly IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of translation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    is_active_in P-body IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    part_of ribonucleoprotein complex ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    protein PAT1 homolog 2
    Names
    PAT1-like protein 2
    protein PAT1 homolog a
    protein associated with topoisomerase II homolog 2

    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_001145112.2NP_001138584.1  protein PAT1 homolog 2 isoform 1

      See identical proteins and their annotated locations for NP_001138584.1

      Status: VALIDATED

      Source sequence(s)
      AC009996, AC025270
      Consensus CDS
      CCDS45253.1
      UniProtKB/Swiss-Prot
      C9JE40
      Related
      ENSP00000416673.1, ENST00000434130.6
      Conserved Domains (1) summary
      pfam09770
      Location:263413
      PAT1; Topoisomerase II-associated protein PAT1
    2. NM_001330283.2NP_001317212.1  protein PAT1 homolog 2 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC009996, AC025270
      Consensus CDS
      CCDS81873.1
      UniProtKB/TrEMBL
      H0YMQ2
      Related
      ENSP00000453695.1, ENST00000560780.1
    3. NM_001387260.1NP_001374189.1  protein PAT1 homolog 2 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC009996, AC025270
      Conserved Domains (1) summary
      pfam09770
      Location:232382
      PAT1; Topoisomerase II-associated protein PAT1
    4. NM_001387261.1NP_001374190.1  protein PAT1 homolog 2 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC009996, AC025270
      Consensus CDS
      CCDS45253.1
      UniProtKB/Swiss-Prot
      C9JE40
      Conserved Domains (1) summary
      pfam09770
      Location:263413
      PAT1; Topoisomerase II-associated protein PAT1
    5. NM_001387262.1NP_001374191.1  protein PAT1 homolog 2 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC009996, AC025270
      Consensus CDS
      CCDS45253.1
      UniProtKB/Swiss-Prot
      C9JE40
      Conserved Domains (1) summary
      pfam09770
      Location:263413
      PAT1; Topoisomerase II-associated protein PAT1
    6. NM_001387263.1NP_001374192.1  protein PAT1 homolog 2 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC009996, AC025270
      Consensus CDS
      CCDS45253.1
      UniProtKB/Swiss-Prot
      C9JE40
      Related
      ENSP00000508024.1, ENST00000682850.1
      Conserved Domains (1) summary
      pfam09770
      Location:263413
      PAT1; Topoisomerase II-associated protein PAT1
    7. NM_001387264.1NP_001374193.1  protein PAT1 homolog 2 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC009996, AC025270
      Conserved Domains (1) summary
      pfam09770
      Location:232382
      PAT1; Topoisomerase II-associated protein PAT1

    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
      44665732..44711390 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011521339.4XP_011519641.1  protein PAT1 homolog 2 isoform X3

      See identical proteins and their annotated locations for XP_011519641.1

      Conserved Domains (1) summary
      pfam09770
      Location:263413
      PAT1; Topoisomerase II-associated protein PAT1
    2. XM_011521345.4XP_011519647.1  protein PAT1 homolog 2 isoform X7

      Conserved Domains (1) summary
      pfam09770
      Location:176316
      PAT1; Topoisomerase II-associated protein PAT1
    3. XM_011521343.4XP_011519645.1  protein PAT1 homolog 2 isoform X6

      See identical proteins and their annotated locations for XP_011519645.1

      Conserved Domains (1) summary
      pfam09770
      Location:179313
      PAT1; Topoisomerase II-associated protein PAT1
    4. XM_011521338.4XP_011519640.1  protein PAT1 homolog 2 isoform X3

      See identical proteins and their annotated locations for XP_011519640.1

      Conserved Domains (1) summary
      pfam09770
      Location:263413
      PAT1; Topoisomerase II-associated protein PAT1
    5. XM_047432230.1XP_047288186.1  protein PAT1 homolog 2 isoform X3

    6. XM_011521337.3XP_011519639.2  protein PAT1 homolog 2 isoform X2

    7. XM_011521346.3XP_011519648.2  protein PAT1 homolog 2 isoform X8

    8. XM_047432231.1XP_047288187.1  protein PAT1 homolog 2 isoform X4

    9. XM_011521336.3XP_011519638.2  protein PAT1 homolog 2 isoform X1

    10. XM_011521341.2XP_011519643.1  protein PAT1 homolog 2 isoform X3

      See identical proteins and their annotated locations for XP_011519643.1

      Conserved Domains (1) summary
      pfam09770
      Location:263413
      PAT1; Topoisomerase II-associated protein PAT1
    11. XM_011521342.3XP_011519644.1  protein PAT1 homolog 2 isoform X5

      Conserved Domains (1) summary
      pfam09770
      Location:189329
      PAT1; Topoisomerase II-associated protein PAT1
    12. XM_011521344.4XP_011519646.1  protein PAT1 homolog 2 isoform X6

      See identical proteins and their annotated locations for XP_011519646.1

      Conserved Domains (1) summary
      pfam09770
      Location:179313
      PAT1; Topoisomerase II-associated protein PAT1
    13. XM_047432232.1XP_047288188.1  protein PAT1 homolog 2 isoform X9

    Reference GRCh38.p14 ALT_REF_LOCI_1

    Genomic

    1. NT_187605.1 Reference GRCh38.p14 ALT_REF_LOCI_1

      Range
      4669..34672 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060939.1 Alternate T2T-CHM13v2.0

      Range
      42473704..42519366 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054377475.1XP_054233450.1  protein PAT1 homolog 2 isoform X3

    2. XM_054377481.1XP_054233456.1  protein PAT1 homolog 2 isoform X10

    3. XM_054377479.1XP_054233454.1  protein PAT1 homolog 2 isoform X6

    4. XM_054377473.1XP_054233448.1  protein PAT1 homolog 2 isoform X3

    5. XM_054377474.1XP_054233449.1  protein PAT1 homolog 2 isoform X3

    6. XM_054377472.1XP_054233447.1  protein PAT1 homolog 2 isoform X2

    7. XM_054377482.1XP_054233457.1  protein PAT1 homolog 2 isoform X8

    8. XM_054377477.1XP_054233452.1  protein PAT1 homolog 2 isoform X4

    9. XM_054377471.1XP_054233446.1  protein PAT1 homolog 2 isoform X1

    10. XM_054377476.1XP_054233451.1  protein PAT1 homolog 2 isoform X3

    11. XM_054377478.1XP_054233453.1  protein PAT1 homolog 2 isoform X5

    12. XM_054377480.1XP_054233455.1  protein PAT1 homolog 2 isoform X6