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

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, Apr 2022]
Expression: Ubiquitous expression in skin (RPKM 31.2), small intestine (RPKM 22.9) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 15q24.1

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	15	NC_000015.10 (74836118..74843156, complement)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	15	NC_060939.1 (72706014..72713002, complement)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	15	NC_000015.9 (75128459..75135497, complement)

Chromosome 15 - NC_000015.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The ULK3 kinase is a determinant of keratinocyte self-renewal and tumorigenesis targeting the arginine methylome.
Title: The ULK3 kinase is a determinant of keratinocyte self-renewal and tumorigenesis targeting the arginine methylome.
Conformational plasticity of the ULK3 kinase domain.
Title: Conformational plasticity of the ULK3 kinase domain.
Increased ULK3 also induces autophagy, which is unlinked from GLI and CAF activation. ULK3 upregulation occurs in the CAFs of several tumor types, and ULK3 silencing suppresses the tumor-enhancing properties of these cells.
Title: The ULK3 Kinase Is Critical for Convergent Control of Cancer-Associated Fibroblast Activation by CSL and GLI.
Structural and biochemical studies reveal an unusually tight interaction between ULK3 and IST1, an ESCRT-III subunit required for cytokinetic abscission.
Title: ULK3 regulates cytokinetic abscission by phosphorylating ESCRT-III proteins.
First named and identified as protein kinase of the ULK family
Title: The protein kinase complement of the human genome.
Observational study and meta-analysis of gene-disease association. (HuGE Navigator)
Title: Discovery and replication of novel blood pressure genetic loci in the Women's Genome Health Study.
Dual function of UNC-51-like kinase 3 (Ulk3) in the Sonic hedgehog signaling pathway.
Title: Dual function of UNC-51-like kinase 3 (Ulk3) in the Sonic hedgehog signaling pathway.
serine/threonine kinase ULK3 is involved in the SHH pathway as a positive regulator of GLI proteins
Title: Identification of a novel serine/threonine kinase ULK3 as a positive regulator of Hedgehog pathway.
Observational study, meta-analysis, and genome-wide association study of gene-disease association. (HuGE Navigator)
Title: Genome-wide association study of blood pressure and hypertension.
Observational study of gene-disease association. (HuGE Navigator)
Title: The IFNG (IFN-gamma) genotype predicts cytogenetic and molecular response to imatinib therapy in chronic myeloid leukemia.

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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

EBI GWAS Catalog

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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D15S1197 (e-PCR)
- UniSTS:77744

SCAMP2_798 (e-PCR)
- UniSTS:277689

STS-W74766 (e-PCR)
- UniSTS:4088

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein serine kinase activity	IEA Inferred from Electronic Annotation more info
enables protein serine/threonine kinase activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein serine/threonine kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein serine/threonine kinase activity	TAS Traceable Author Statement more info

Process	Evidence Code	Pubs
involved_in autophagosome assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in autophagy	TAS Traceable Author Statement more info	PubMed
involved_in autophagy of mitochondrion	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular senescence	TAS Traceable Author Statement more info	PubMed
involved_in fibroblast activation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of smoothened signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in peptidyl-serine phosphorylation	IBA Inferred from Biological aspect of Ancestor more info
involved_in piecemeal microautophagy of the nucleus	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of smoothened signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in protein autophosphorylation	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein autophosphorylation	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of autophagy	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to starvation	IBA Inferred from Biological aspect of Ancestor more info
involved_in reticulophagy	IBA Inferred from Biological aspect of Ancestor more info
involved_in smoothened signaling pathway	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
is_active_in autophagosome	IBA Inferred from Biological aspect of Ancestor more info
located_in ciliary tip	TAS Traceable Author Statement more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
is_active_in phagophore assembly site	IBA Inferred from Biological aspect of Ancestor more info
located_in phagophore assembly site	TAS Traceable Author Statement more info	PubMed
is_active_in phagophore assembly site membrane	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: serine/threonine-protein kinase ULK3

NP_001092906.3

EC 2.7.11.1

NP_001271293.2

EC 2.7.11.1

NP_001271294.1

EC 2.7.11.1

NP_001398011.1

EC 2.7.11.1

XP_005254346.1

EC 2.7.11.1

XP_016877557.1

EC 2.7.11.1

XP_047288324.1

EC 2.7.11.1

XP_047288325.1

EC 2.7.11.1

XP_047288326.1

EC 2.7.11.1

XP_047288327.1

EC 2.7.11.1

XP_047288328.1

EC 2.7.11.1

XP_047288329.1

EC 2.7.11.1

XP_054233677.1

EC 2.7.11.1

XP_054233678.1

EC 2.7.11.1

XP_054233679.1

EC 2.7.11.1

XP_054233680.1

EC 2.7.11.1

XP_054233681.1

EC 2.7.11.1

XP_054233682.1

EC 2.7.11.1

XP_054233683.1

EC 2.7.11.1

XP_054233684.1

EC 2.7.11.1

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)

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 ...
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 ...
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
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

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
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
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_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000015.10 Reference GRCh38.p14 Primary Assembly

Range

74836118..74843156 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017022068.2 → XP_016877557.1 serine/threonine-protein kinase ULK3 isoform X2
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 ...
XM_047432373.1 → XP_047288329.1 serine/threonine-protein kinase ULK3 isoform X6
XM_047432368.1 → XP_047288324.1 serine/threonine-protein kinase ULK3 isoform X2
XM_047432371.1 → XP_047288327.1 serine/threonine-protein kinase ULK3 isoform X4

Related

ENST00000565881.5
XM_047432369.1 → XP_047288325.1 serine/threonine-protein kinase ULK3 isoform X3
XM_047432370.1 → XP_047288326.1 serine/threonine-protein kinase ULK3 isoform X3
XM_047432372.1 → XP_047288328.1 serine/threonine-protein kinase ULK3 isoform X5