Lck LCK proto-oncogene, Src family tyrosine kinase [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Lckprovided by RGD
Official Full Name: LCK proto-oncogene, Src family tyrosine kinaseprovided by RGD
Primary source: RGD:2994
See related: EnsemblRapid:ENSRNOG00000009705 AllianceGenome:RGD:2994
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Lck1; Lcktkr; p56-LCK
Summary: Enables antigen binding activity and protein tyrosine kinase activity. Involved in several processes, including positive regulation of uterine smooth muscle contraction; protein phosphorylation; and response to aldosterone. Located in endocytic vesicle. Is active in glutamatergic synapse and postsynaptic specialization, intracellular component. Used to study allergic conjunctivitis and human immunodeficiency virus infectious disease. Biomarker of retinal degeneration. Human ortholog(s) of this gene implicated in immunodeficiency 22. Orthologous to human LCK (LCK proto-oncogene, Src family tyrosine kinase). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 2004.1) and Spleen (RPKM 221.3) See more
Orthologs: human mouse all
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Genomic context

Location:: 5q36

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (147172642..147201267, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (141888318..141916945, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (147750976..147779627, complement)

Chromosome 5 - NC_086023.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

RNA-Sequencing Analysis and Expression of Lymphocyte-Specific Protein Tyrosine Kinase, Linker for Activation of T Cells, and 70-kDa T-Cell Receptor Zeta-Chain Associated Protein Kinase in Rat Liver Transplant Rejection.
Title: RNA-Sequencing Analysis and Expression of Lymphocyte-Specific Protein Tyrosine Kinase, Linker for Activation of T Cells, and 70-kDa T-Cell Receptor Zeta-Chain Associated Protein Kinase in Rat Liver Transplant Rejection.
lymphoid cell kinase is the crucial effector of beta1-integrin signalling in Schwann cells
Title: Lck tyrosine kinase mediates β1-integrin signalling to regulate Schwann cell migration and myelination.
LCK could be considered a target attenuated by the anti-aging effects of CR. Integrative analysis of cDNA microarray and interactome data are powerful tools for identifying target molecules that are involved in the aging process and modulated by CR.
Title: Identification of the dichotomous role of age-related LCK in calorie restriction revealed by integrative analysis of cDNA microarray and interactome.
Lck and c-Src kinases appear to play an important role in regulating tyrosine phosphorylation of phospholipase C1 and contractile activity in the rat uterus.
Title: Role of nonreceptor protein tyrosine kinases during phospholipase C-gamma 1-related uterine contractions in the rat.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Lck (e-PCR), detects polymorphism
- UniSTS:526087

RH132104 (e-PCR)
- UniSTS:215387

D5Wox15 (e-PCR)
- UniSTS:517797

PMC166405P2 (e-PCR)
- UniSTS:271589

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATPase binding	IEA Inferred from Electronic Annotation more info
enables ATPase binding	ISO Inferred from Sequence Orthology more info
enables CD4 receptor binding	IEA Inferred from Electronic Annotation more info
enables CD4 receptor binding	ISO Inferred from Sequence Orthology more info
enables CD8 receptor binding	IEA Inferred from Electronic Annotation more info
enables CD8 receptor binding	ISO Inferred from Sequence Orthology more info
enables SH2 domain binding	IEA Inferred from Electronic Annotation more info
enables SH2 domain binding	ISO Inferred from Sequence Orthology more info
enables T cell receptor binding	IEA Inferred from Electronic Annotation more info
enables T cell receptor binding	ISO Inferred from Sequence Orthology more info
enables antigen binding	IPI Inferred from Physical Interaction more info	PubMed
enables histone H2AXY142 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3Y41 kinase activity	IEA Inferred from Electronic Annotation more info
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables non-membrane spanning protein tyrosine kinase activity	IBA Inferred from Biological aspect of Ancestor more info
enables non-membrane spanning protein tyrosine kinase activity	IEA Inferred from Electronic Annotation more info
enables non-membrane spanning protein tyrosine kinase activity	ISO Inferred from Sequence Orthology more info
enables phosphatidylinositol 3-kinase binding	IEA Inferred from Electronic Annotation more info
enables phosphatidylinositol 3-kinase binding	ISO Inferred from Sequence Orthology more info
enables phospholipase activator activity	IEA Inferred from Electronic Annotation more info
enables phospholipase activator activity	ISO Inferred from Sequence Orthology more info
enables phospholipase binding	IEA Inferred from Electronic Annotation more info
enables phospholipase binding	ISO Inferred from Sequence Orthology more info
enables phosphotyrosine residue binding	IEA Inferred from Electronic Annotation more info
enables phosphotyrosine residue binding	ISO Inferred from Sequence Orthology more info
enables protein antigen binding	ISO Inferred from Sequence Orthology more info
enables protein kinase binding	IEA Inferred from Electronic Annotation more info
enables protein kinase binding	ISO Inferred from Sequence Orthology more info
enables protein phosphatase binding	IEA Inferred from Electronic Annotation more info
enables protein phosphatase binding	ISO Inferred from Sequence Orthology more info
enables protein serine/threonine phosphatase activity	IEA Inferred from Electronic Annotation more info
enables protein serine/threonine phosphatase activity	ISO Inferred from Sequence Orthology more info
enables protein tyrosine kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein tyrosine kinase activity	ISO Inferred from Sequence Orthology more info
enables protein-containing complex binding	IDA Inferred from Direct Assay more info	PubMed
enables signaling receptor binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in B cell receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within B cell receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in CD27 signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in CD27 signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in Fc-gamma receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in Fc-gamma receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in T cell activation	ISO Inferred from Sequence Orthology more info
involved_in T cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in T cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in T cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in T cell receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in T cell receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in cell surface receptor protein tyrosine kinase signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within cell surface receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
acts_upstream_of gamma-delta T cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in intracellular signal transduction	IEA Inferred from Electronic Annotation more info
involved_in intracellular signal transduction	ISO Inferred from Sequence Orthology more info
involved_in intracellular zinc ion homeostasis	IEA Inferred from Electronic Annotation more info
involved_in intracellular zinc ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in peptidyl-tyrosine autophosphorylation	ISO Inferred from Sequence Orthology more info
involved_in peptidyl-tyrosine phosphorylation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within peptidyl-tyrosine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in peptidyl-tyrosine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of T cell activation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of T cell activation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cysteine-type endopeptidase activity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of gamma-delta T cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of heterotypic cell-cell adhesion	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of heterotypic cell-cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of intrinsic apoptotic signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of intrinsic apoptotic signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of leukocyte cell-cell adhesion	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of tyrosine phosphorylation of STAT protein	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of uterine smooth muscle contraction	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein autophosphorylation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within protein autophosphorylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in protein phosphorylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of T cell receptor signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of regulatory T cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in release of sequestered calcium ion into cytosol	ISO Inferred from Sequence Orthology more info
involved_in response to aldosterone	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to hydrogen peroxide	IDA Inferred from Direct Assay more info	PubMed
involved_in response to mechanical stimulus	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in response to metal ion	IDA Inferred from Direct Assay more info	PubMed
involved_in response to xenobiotic stimulus	IEA Inferred from Electronic Annotation more info
involved_in response to xenobiotic stimulus	ISO Inferred from Sequence Orthology more info
involved_in response to zinc ion	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
located_in cell-cell junction	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in endocytic vesicle	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
located_in immunological synapse	IEA Inferred from Electronic Annotation more info
located_in immunological synapse	ISO Inferred from Sequence Orthology more info
located_in membrane raft	IEA Inferred from Electronic Annotation more info
located_in membrane raft	ISO Inferred from Sequence Orthology more info
located_in pericentriolar material	IEA Inferred from Electronic Annotation more info
located_in pericentriolar material	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic specialization, intracellular component	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: proto-oncogene tyrosine-protein kinase LCK

Names: lymphocyte cell-specific protein-tyrosine kinase; lymphocyte protein tyrosine kinase; lymphocyte-specific protein tyrosine kinase

NP_001094179.1

EC 2.7.10.2

NP_001402799.1

EC 2.7.10.2

XP_006238994.1

EC 2.7.10.2

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_001100709.2 → NP_001094179.1 proto-oncogene tyrosine-protein kinase LCK

See identical proteins and their annotated locations for NP_001094179.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000005

UniProtKB/Swiss-Prot

B1H265, Q01621

Conserved Domains (3) summary

cd10362
Location:123 → 223

SH2_Src_Lck; Src homology 2 (SH2) domain in lymphocyte cell kinase (Lck)

cd12005
Location:65 → 118

SH3_Lck; Src homology 3 domain of Lck Protein Tyrosine Kinase

cd05067
Location:237 → 500

PTKc_Lck_Blk; Catalytic domain of the Protein Tyrosine Kinases, Lymphocyte-specific kinase and Blk
NM_001415870.1 → NP_001402799.1 proto-oncogene tyrosine-protein kinase LCK

Status: VALIDATED

Source sequence(s)

JAXUCZ010000005

UniProtKB/Swiss-Prot

B1H265, Q01621

Related

ENSRNOP00000012936.7, ENSRNOT00000012936.8

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086023.1 Reference GRCr8

Range

147172642..147201267 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006238932.4 → XP_006238994.1 proto-oncogene tyrosine-protein kinase LCK isoform X1

UniProtKB/TrEMBL

A0A0H2UHH7

Related

ENSRNOP00000111801.1, ENSRNOT00000145835.1

Conserved Domains (4) summary

cd10362
Location:134 → 234

SH2_Src_Lck; Src homology 2 (SH2) domain in lymphocyte cell kinase (Lck)

cd12005
Location:76 → 129

SH3_Lck; Src homology 3 domain of Lck Protein Tyrosine Kinase

cd05067
Location:248 → 511

PTKc_Lck_Blk; Catalytic domain of the Protein Tyrosine Kinases, Lymphocyte-specific kinase and Blk

pfam07714
Location:256 → 505

Pkinase_Tyr; Protein tyrosine kinase