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    ULK3 unc-51 like kinase 3 [ Homo sapiens (human) ]

    Gene ID: 25989, updated on 10-Dec-2024

    Summary

    Official Symbol
    ULK3provided by HGNC
    Official Full Name
    unc-51 like kinase 3provided by HGNC
    Primary source
    HGNC:HGNC:19703
    See related
    Ensembl:ENSG00000140474 MIM:613472; AllianceGenome:HGNC:19703
    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
    Summary
    Enables protein serine/threonine kinase activity. Involved in several processes, including fibroblast activation; protein autophosphorylation; and regulation of smoothened signaling pathway. Located in cytoplasm. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in skin (RPKM 31.2), small intestine (RPKM 22.9) and 25 other tissues See more
    Orthologs
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    Genomic context

    See ULK3 in Genome Data Viewer
    Location:
    15q24.1
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (74836118..74843156, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (72706014..72713002, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (75128459..75135497, complement)

    Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:75112197-75113010 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:75113011-75113824 Neighboring gene lectin, mannose binding 1 like Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:75114639-75115451 Neighboring gene ReSE screen-validated silencer GRCh37_chr15:75118950-75119157 Neighboring gene uncharacterized LOC105370897 Neighboring gene complexin 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9808 Neighboring gene ReSE screen-validated silencer GRCh37_chr15:75128807-75129383 Neighboring gene ReSE screen-validated silencer GRCh37_chr15:75131867-75132014 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:75134491-75135016 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:75135085-75135996 Neighboring gene microRNA 6882 Neighboring gene secretory carrier membrane protein 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9809 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9810 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9811 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9812 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9813 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9814 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:75157901-75158832 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:75161878-75162388 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:75162904-75163889 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9815 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:75182299-75182832 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:75191053-75191552 Neighboring gene mannose phosphate isomerase Neighboring gene family with sequence similarity 219 member B

    Genomic regions, transcripts, and products

    Expression

    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    BioGRID CRISPR Screen Phenotypes (7 hits/793 screens)

    EBI GWAS Catalog

    Description
    Genetic variants in novel pathways influence blood pressure and cardiovascular disease risk.
    EBI GWAS Catalog
    Genome-wide association analysis of coffee drinking suggests association with CYP1A1/CYP1A2 and NRCAM.
    EBI GWAS Catalog
    Genome-wide association study of blood pressure and hypertension.
    EBI GWAS Catalog
    Genome-wide association study of chemotherapeutic agent-induced severe neutropenia/leucopenia for patients in Biobank Japan.
    EBI GWAS Catalog
    Genome-wide meta-analysis identifies regions on 7p21 (AHR) and 15q24 (CYP1A2) as determinants of habitual caffeine consumption.
    EBI GWAS Catalog

    Pathways from PubChem

    Interactions

    General gene information

    Clone Names

    • FLJ90566, DKFZp434C131

    Gene Ontology Provided by GOA

    Items 1 - 25 of 26
    Function Evidence Code Pubs
    enables 3-phosphoinositide-dependent protein kinase activity  
    enables AMP-activated protein kinase activity  
    enables ATP binding  
    enables DNA-dependent protein kinase activity  
    enables Rho-dependent protein serine/threonine kinase activity  
    enables eukaryotic translation initiation factor 2alpha kinase activity  
    enables histone H2AS1 kinase activity  
    enables histone H2AS121 kinase activity  
    enables histone H2AT120 kinase activity  
    enables histone H2AXS139 kinase activity  
    enables histone H2BS14 kinase activity  
    enables histone H2BS36 kinase activity  
    enables histone H3S10 kinase activity  
    enables histone H3S28 kinase activity  
    enables histone H3S57 kinase activity  
    enables histone H3T11 kinase activity  
    enables histone H3T3 kinase activity  
    enables histone H3T45 kinase activity  
    enables histone H3T6 kinase activity  
    enables histone H4S1 kinase activity  
    enables protein binding PubMed 
    enables protein serine kinase activity  
    enables protein serine/threonine kinase activity  
    enables protein serine/threonine kinase activity PubMed 
    enables protein serine/threonine kinase activity  
    enables ribosomal protein S6 kinase activity  
    Items 1 - 25 of 26
    Process Evidence Code Pubs
    involved_in autophagosome assembly  
    involved_in autophagy PubMed 
    involved_in cellular senescence PubMed 
    involved_in chromatin remodeling  
    involved_in fibroblast activation PubMed 
    involved_in mitophagy  
    involved_in negative regulation of smoothened signaling pathway PubMed 
    involved_in piecemeal microautophagy of the nucleus  
    involved_in positive regulation of smoothened signaling pathway PubMed 
    involved_in protein autophosphorylation PubMed 
    involved_in regulation of autophagy  
    involved_in response to starvation  
    involved_in reticulophagy  
    involved_in smoothened signaling pathway PubMed 
    Component Evidence Code Pubs
    is_active_in autophagosome  
    located_in ciliary tip  
    is_active_in cytoplasm  
    located_in cytoplasm PubMed 
    is_active_in cytosol  
    is_active_in phagophore assembly site  
    located_in phagophore assembly site PubMed 
    is_active_in phagophore assembly site membrane  

    General protein information

    Preferred Names
    serine/threonine-protein kinase ULK3
    NP_001092906.3
    NP_001271293.2
    NP_001271294.1
    NP_001398011.1
    XP_005254346.1
    XP_016877557.1
    XP_047288324.1
    XP_047288325.1
    XP_047288326.1
    XP_047288327.1
    XP_047288328.1
    XP_047288329.1
    XP_054233677.1
    XP_054233678.1
    XP_054233679.1
    XP_054233680.1
    XP_054233681.1
    XP_054233682.1
    XP_054233683.1
    XP_054233684.1

    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_001099436.4 → NP_001092906.3  serine/threonine-protein kinase ULK3 isoform a

      See identical proteins and their annotated locations for NP_001092906.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (a).
      Source sequence(s)
      AK293181, AK299380, AL117482, BC157884
      Consensus CDS
      CCDS45305.1
      UniProtKB/Swiss-Prot
      B2RXK3, B4DFT0, B4DRQ7, D3DW68, Q6PHR2, Q9NPN5, Q9UFS4
      UniProtKB/TrEMBL
      B4DFS6
      Related
      ENSP00000400312.2, ENST00000440863.7
      Conserved Domains (4) summary
      smart00220
      Location:14 → 270
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      cd02684
      Location:279 → 353
      MIT_2; MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in proteins with an n-terminal serine/threonine kinase domain. The molecular function of the MIT domain is unclear.
      cd14121
      Location:18 → 269
      STKc_ULK3; Catalytic domain of the Serine/Threonine kinase, Unc-51-like kinase 3
      cl00299
      Location:374 → 449
      MIT; MIT: domain contained within Microtubule Interacting and Trafficking molecules. The MIT domain is found in sorting nexins, the nuclear thiol protease PalBH, the AAA protein spastin and archaebacterial proteins with similar domain architecture, vacuolar ...
    2. NM_001284364.3 → NP_001271293.2  serine/threonine-protein kinase ULK3 isoform b

      See identical proteins and their annotated locations for NP_001271293.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. The encoded isoform (b) is shorter than isoform a.
      Source sequence(s)
      AI677802, AK293181, BC157884
      Consensus CDS
      CCDS76779.1
      UniProtKB/TrEMBL
      B4DFS6
      Related
      ENSP00000456051.1, ENST00000569437.5
      Conserved Domains (4) summary
      smart00220
      Location:14 → 270
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      cd02684
      Location:279 → 353
      MIT_2; MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in proteins with an n-terminal serine/threonine kinase domain. The molecular function of the MIT domain is unclear.
      cd14121
      Location:18 → 269
      STKc_ULK3; Catalytic domain of the Serine/Threonine kinase, Unc-51-like kinase 3
      cl00299
      Location:374 → 442
      MIT; MIT: domain contained within Microtubule Interacting and Trafficking molecules. The MIT domain is found in sorting nexins, the nuclear thiol protease PalBH, the AAA protein spastin and archaebacterial proteins with similar domain architecture, vacuolar ...
    3. NM_001284365.3 → NP_001271294.1  serine/threonine-protein kinase ULK3 isoform c

      See identical proteins and their annotated locations for NP_001271294.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate splice site in the 5' region and initiates translation from a downstream in-frame start codon, compared to variant 1. The encoded isoform (c) is shorter than isoform a.
      Source sequence(s)
      AK293181, AL117482, BI829133
      UniProtKB/TrEMBL
      B4DDG2, B4DQN3
      Conserved Domains (4) summary
      smart00220
      Location:1 → 153
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      cd02684
      Location:162 → 236
      MIT_2; MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in proteins with an n-terminal serine/threonine kinase domain. The molecular function of the MIT domain is unclear.
      cl00299
      Location:257 → 332
      MIT; MIT: domain contained within Microtubule Interacting and Trafficking molecules. The MIT domain is found in sorting nexins, the nuclear thiol protease PalBH, the AAA protein spastin and archaebacterial proteins with similar domain architecture, vacuolar ...
      cl21453
      Location:1 → 152
      PKc_like; Protein Kinases, catalytic domain
    4. NM_001411082.1 → NP_001398011.1  serine/threonine-protein kinase ULK3 isoform d

      Status: VALIDATED

      Source sequence(s)
      AC091230
      Consensus CDS
      CCDS92044.1
      Related
      ENSP00000457853.1, ENST00000568667.5

    RNA

    1. NR_104307.3 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) contains an alternate internal segment, 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)
      AL117482
      Related
      ENST00000570276.5
    2. NR_104308.3 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) contains an alternate internal segment and uses alternate splice sites at two internal exons, 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)
      AI677802, BC048289, BC056423, BI829133
      Related
      ENST00000561725.5
    3. NR_104309.3 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) contains an alternate internal segment and use an alternate splice sites at an 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 (NMD).
      Source sequence(s)
      BC056423, BI829133
      Related
      ENST00000566479.5

    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
      74836118..74843156 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017022068.2 → XP_016877557.1  serine/threonine-protein kinase ULK3 isoform X2

    2. XM_005254289.3 → XP_005254346.1  serine/threonine-protein kinase ULK3 isoform X1

      See identical proteins and their annotated locations for XP_005254346.1

      UniProtKB/Swiss-Prot
      Q6PHR2
      Conserved Domains (4) summary
      smart00220
      Location:46 → 281
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      cd02684
      Location:290 → 364
      MIT_2; MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in proteins with an n-terminal serine/threonine kinase domain. The molecular function of the MIT domain is unclear.
      cd14121
      Location:46 → 280
      STKc_ULK3; Catalytic domain of the Serine/Threonine kinase, Unc-51-like kinase 3
      cl00299
      Location:385 → 460
      MIT; MIT: domain contained within Microtubule Interacting and Trafficking molecules. The MIT domain is found in sorting nexins, the nuclear thiol protease PalBH, the AAA protein spastin and archaebacterial proteins with similar domain architecture, vacuolar ...
    3. XM_047432373.1 → XP_047288329.1  serine/threonine-protein kinase ULK3 isoform X6

      UniProtKB/TrEMBL
      B4DFS6
    4. XM_047432368.1 → XP_047288324.1  serine/threonine-protein kinase ULK3 isoform X2

    5. XM_047432371.1 → XP_047288327.1  serine/threonine-protein kinase ULK3 isoform X4

      Related
      ENST00000565881.5
    6. XM_047432369.1 → XP_047288325.1  serine/threonine-protein kinase ULK3 isoform X3

    7. XM_047432370.1 → XP_047288326.1  serine/threonine-protein kinase ULK3 isoform X3

    8. XM_047432372.1 → XP_047288328.1  serine/threonine-protein kinase ULK3 isoform X5

    RNA

    1. XR_007064437.1 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060939.1 Alternate T2T-CHM13v2.0

      Range
      72706014..72713002 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054377703.1 → XP_054233678.1  serine/threonine-protein kinase ULK3 isoform X2

    2. XM_054377702.1 → XP_054233677.1  serine/threonine-protein kinase ULK3 isoform X1

    3. XM_054377709.1 → XP_054233684.1  serine/threonine-protein kinase ULK3 isoform X6

      UniProtKB/TrEMBL
      B4DFS6
    4. XM_054377706.1 → XP_054233681.1  serine/threonine-protein kinase ULK3 isoform X4

    5. XM_054377704.1 → XP_054233679.1  serine/threonine-protein kinase ULK3 isoform X3

    6. XM_054377705.1 → XP_054233680.1  serine/threonine-protein kinase ULK3 isoform X3

    7. XM_054377708.1 → XP_054233683.1  serine/threonine-protein kinase ULK3 isoform X5

    8. XM_054377707.1 → XP_054233682.1  serine/threonine-protein kinase ULK3 isoform X5

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