LXL04_022485 | RubberDandelionOmics

Gene overview

LXL04_022485

Reference: OH-1004 Chr: Chr04 Coordinates: 151266952-151270896 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2865 bp · LXL04_022485|LXL04_022485|OH1004|cDNA

ATGGGTTTAAAAATGCAAGCGAACGGGCACGGCCACCATCACTTGGTGGCGGTGAGTTTAAACGAACAGCAACTCGGTACAAAACGAAAGTACAGAACTTATtttccaagaacaaatcaagGAAAATACTTAGCATTATGGATAATTGCTTTTGGGTTTGCGGCGGTTTATGTTTATCGATGCATAGATGAAGGGCACCAAGAGAGAATTGAAGAAGGGTTAGTGAGTATGTGTGATCAGAGGGCCAGAATGTTGCAGGA...

CDS

Download CDS FASTA

2865 bp · LXL04_022485|LXL04_022485|OH1004|CDS

ATGGGTTTAAAAATGCAAGCGAACGGGCACGGCCACCATCACTTGGTGGCGGTGAGTTTAAACGAACAGCAACTCGGTACAAAACGAAAGTACAGAACTTATTTTCCAAGAACAAATCAAGGAAAATACTTAGCATTATGGATAATTGCTTTTGGGTTTGCGGCGGTTTATGTTTATCGATGCATAGATGAAGGGCACCAAGAGAGAATTGAAGAAGGGTTAGTGAGTATGTGTGATCAGAGGGCCAGAATGTTGCAGGA...

Protein

Download Protein FASTA

954 aa · LXL04_022485|LXL04_022485|OH1004|PROTEIN

MGLKMQANGHGHHHLVAVSLNEQQLGTKRKYRTYFPRTNQGKYLALWIIAFGFAAVYVYRCIDEGHQERIEEGLVSMCDQRARMLQDQFSVSVNHVHALAVLVSTFHYYKNPSVIDQETFAEYTARTAFERPLLSGVAYAQRVMNSEREEFESQHGGTIRTMANKEPSPHRDEYAPVIFAQETVSYLNLLDMMSGEEDRENILRARSTGKAVLTSPFKLLGSHHLGVVLTIPVYKSKLPPNASVRDRIEATAGYLGGAFD...

Flanking Sequence Download

Sequence orientation and download details

Upstream/downstream are capped at 10000 bp per side. Negative-strand genes are reverse-complemented so the final FASTA follows transcriptional 5′→3′ orientation.

ID Mapping

Input ID	`LXL04_022485`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_022485

Location Chr04:151266952-151270896 (+)

Description Similar to AHK4: Histidine kinase 4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g01830`	Cytokinins (CK) receptor related to bacterial two-component regulators.	The Arabidopsis sensor His-kinase, AHk4, can respond to cytokinins.2001 · DOI: 10.1093/pcp/pce037 Identification of CRE1 as a cytokinin receptor from Arabidopsis.2001 · DOI: 10.1038/35059117 The AHK4 gene involved in the cytokinin-signaling pathway as a direct receptor molecule in Arabidopsis thaliana.2001 · DOI: 10.1093/pcp/pce094 The Arabidopsis AHK4 histidine kinase is a cytokinin-binding receptor that transduces cytokinin signals across the membrane.2001 · DOI: 10.1093/pcp/pce127 Characterization of the ARR15 and ARR16 response regulators with special reference to the cytokinin signaling pathway mediated by the AHK4 histidine kinase in roots of Arabidopsis thaliana.2002 · DOI: 10.1093/pcp/pcf121 Mutations at CRE1 impair cytokinin-induced repression of phosphate starvation responses in Arabidopsis.2002 · DOI: 10.1046/j.1365-313x.2002.01431.x Interallelic complementation at the Arabidopsis CRE1 locus uncovers independent pathways for the proliferation of vascular initials and canonical cytokinin signalling.2004 · DOI: 10.1111/j.1365-313x.2004.02023.x A novel regulatory pathway of sulfate uptake in Arabidopsis roots: implication of CRE1/WOL/AHK4-mediated cytokinin-dependent regulation.2004 · DOI: 10.1111/j.1365-313x.2004.02079.x Histidine kinase homologs that act as cytokinin receptors possess overlapping functions in the regulation of shoot and root growth in Arabidopsis.2004 · DOI: 10.1105/tpc.021477 In planta functions of the Arabidopsis cytokinin receptor family.2004 · DOI: 10.1073/pnas.0402887101 Two cytokinin receptors of Arabidopsis thaliana, CRE1/AHK4 and AHK3, differ in their ligand specificity in a bacterial assay.2004 · DOI: 10.1093/pcp/pch132 Topolins and hydroxylated thidiazuron derivatives are substrates of cytokinin O-glucosyltransferase with position specificity related to receptor recognition.2005 · DOI: 10.1104/pp.104.057174 Interaction between phosphate-starvation, sugar, and cytokinin signaling in Arabidopsis and the roles of cytokinin receptors CRE1/AHK4 and AHK3.2005 · DOI: 10.1104/pp.105.060517 A live cell hormone-binding assay on transgenic bacteria expressing a eukaryotic receptor protein.2005 · DOI: 10.1016/j.ab.2005.09.012 Cytokinin receptors are required for normal development of auxin-transporting vascular tissues in the hypocotyl but not in adventitious roots.2006 · DOI: 10.1093/pcp/pci240 Arabidopsis cytokinin receptor mutants reveal functions in shoot growth, leaf senescence, seed size, germination, root development, and cytokinin metabolism.2006 · DOI: 10.1105/tpc.105.037796 Cytokinins regulate a bidirectional phosphorelay network in Arabidopsis.2006 · DOI: 10.1016/j.cub.2006.04.030 Biochemical characteristics and ligand-binding properties of Arabidopsis cytokinin receptor AHK3 compared to CRE1/AHK4 as revealed by a direct binding assay.2006 · DOI: 10.1093/jxb/erl179 The floral volatile, methyl benzoate, from snapdragon (Antirrhinum majus) triggers phytotoxic effects in Arabidopsis thaliana.2007 · DOI: 10.1007/s00425-006-0464-0 Identification of amino acid substitutions that render the Arabidopsis cytokinin receptor histidine kinase AHK4 constitutively active.2007 · DOI: 10.1093/pcp/pcm145 Cytokinin receptors are involved in alkamide regulation of root and shoot development in Arabidopsis.2007 · DOI: 10.1104/pp.107.107953 Functional analysis of AHK1/ATHK1 and cytokinin receptor histidine kinases in response to abscisic acid, drought, and salt stress in Arabidopsis.2007 · DOI: 10.1073/pnas.0706547105 Cytokinins negatively regulate the root iron uptake machinery in Arabidopsis through a growth-dependent pathway.2008 · DOI: 10.1111/j.1365-313x.2008.03502.x Mechanism-based inhibitors of cytokinin oxidase/dehydrogenase attack FAD cofactor.2008 · DOI: 10.1016/j.jmb.2008.05.044 The role of auxins and cytokinins in the mutualistic interaction between Arabidopsis and Piriformospora indica.2008 · DOI: 10.1094/mpmi-21-10-1371 The purine derivative PI-55 blocks cytokinin action via receptor inhibition.2009 · DOI: 10.1111/j.1742-4658.2008.06777.x
`At5g35750`	Cytokinins (CK) receptor related to bacterial two-component regulators.	Histidine kinase homologs that act as cytokinin receptors possess overlapping functions in the regulation of shoot and root growth in Arabidopsis.2004 · DOI: 10.1105/tpc.021477 In planta functions of the Arabidopsis cytokinin receptor family.2004 · DOI: 10.1073/pnas.0402887101 Arabidopsis cytokinin receptor mutants reveal functions in shoot growth, leaf senescence, seed size, germination, root development, and cytokinin metabolism.2006 · DOI: 10.1105/tpc.105.037796 Cytokinins regulate a bidirectional phosphorelay network in Arabidopsis.2006 · DOI: 10.1016/j.cub.2006.04.030 Identification of amino acid substitutions that render the Arabidopsis cytokinin receptor histidine kinase AHK4 constitutively active.2007 · DOI: 10.1093/pcp/pcm145 Cytokinin receptors are involved in alkamide regulation of root and shoot development in Arabidopsis.2007 · DOI: 10.1104/pp.107.107953 Functional analysis of AHK1/ATHK1 and cytokinin receptor histidine kinases in response to abscisic acid, drought, and salt stress in Arabidopsis.2007 · DOI: 10.1073/pnas.0706547105 The role of auxins and cytokinins in the mutualistic interaction between Arabidopsis and Piriformospora indica.2008 · DOI: 10.1094/mpmi-21-10-1371 The histidine kinases CYTOKININ-INDEPENDENT1 and ARABIDOPSIS HISTIDINE KINASE2 and 3 regulate vascular tissue development in Arabidopsis shoots.2009 · DOI: 10.1105/tpc.109.066696 Cytokinin overproduction-caused alteration of flower development is partially mediated by CUC2 and CUC3 in Arabidopsis.2010 · DOI: 10.1016/j.gene.2009.11.003 A subset of cytokinin two-component signaling system plays a role in cold temperature stress response in Arabidopsis.2010 · DOI: 10.1074/jbc.m109.096644

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0717700`	Cytokinin receptor related to bacterial two-component regulators.	No verified direct reference in this release
`Os02g0738400`	Cytokinin receptor related to bacterial two-component regulators.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_022485 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000160 phosphorelay signal transduction system Biological Process

GO:0006468 protein phosphorylation Biological Process

GO:0006970 response to osmotic stress Biological Process

GO:0007231 osmosensory signaling pathway Biological Process

GO:0009414 response to water deprivation Biological Process

GO:0009636 response to toxic substance Biological Process

GO:0009651 response to salt stress Biological Process

GO:0009736 cytokinin-activated signaling pathway Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0009909 regulation of flower development Biological Process

GO:0010029 regulation of seed germination Biological Process

GO:0010086 embryonic root morphogenesis Biological Process

KEGG gene cross-reference

ath:AT2G01830

ath:AT5G35750

dosa:Os03g0717700

mtr:11411168

osa:107275680

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

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Gene expression

View expression in different studies, tissues and treatments. Results are presented separately by study and measurement unit.

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Data sources and gene correspondence

Expression data come from public transcriptome studies. Reference genomes, sample metadata and measurement units are shown with the results. Ambiguous cross-reference correspondences do not select an expression record automatically; missing values do not mean zero expression.

Subcellular Localization Top 5

Computational predictions or homology annotations below do not replace localization experiments.

Endoplasmic reticulum0.465

Rank 1 · LXL04_022485 · OH-1004

Golgi apparatus0.166

Rank 2 · LXL04_022485 · OH-1004

Cytoplasm0.143

Rank 3 · LXL04_022485 · OH-1004

Cell membrane0.142

Rank 4 · LXL04_022485 · OH-1004

Nucleus0.112

Rank 5 · LXL04_022485 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

Open Subcellular Module

Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF03924.20CHASE115-295 aa

PF00512.32HisKA385-450 aa

PF02518.32HATPase_c588-659 aa

PF24896.2Receiver_CRE1682-795 aa

PF00072.31Response_reg822-942 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_022485	`PF03924.20`	CHASE	115	295	8.1e-38	130.8
LXL04_022485	`PF00512.32`	HisKA	385	450	2.1e-20	73.3
LXL04_022485	`PF02518.32`	HATPase_c	588	659	7.3e-23	81.8
LXL04_022485	`PF24896.2`	Receiver_CRE1	682	795	1e-38	133.3
LXL04_022485	`PF00072.31`	Response_reg	822	942	1.7e-23	83.6

Arabidopsis / Rice Protein Homology

Only Arabidopsis and rice are shown. Swiss-Prot entries are reviewed; TrEMBL entries are supplementary sequence candidates. Similarity is not experimental validation.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9C5U0`	Arabidopsis thaliana	Histidine kinase 4	68.937%	Swiss-Prot	strong database homology
`Q9C5U2`	Arabidopsis thaliana	Histidine kinase 2	54.425%	Swiss-Prot	strong database homology
`A1A698`	Oryza sativa subsp. japonica	Probable histidine kinase 4	60.774%	Swiss-Prot	strong database homology
`A1A699`	Oryza sativa subsp. japonica	Probable histidine kinase 6	60.645%	Swiss-Prot	strong database homology

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