LXL04_005416 | RubberDandelionOmics

Gene overview

LXL04_005416

Reference: OH-1004 Chr: Chr01 Coordinates: 163134407-163141202 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2352 bp · LXL04_005416|LXL04_005416|OH1004|cDNA

ATGGCTGAAGGGATCCAAAGCAATCCCCCTCTTCTTCTCCGACCCTCTCTCTCCATCTCGACGCAACTGGACACGGGAATGGCAGCCGCGTCAGGGTTTCTCCTGGTTCCTTCTATCGATCGACAGAGGAGAGGAAAGTGGAAATGGCGGTCGCTTGGGGTTGTTCTCGCACTAGCTGCAATCGACGGTCGCACTAGCTGCAATCGACGGCGAGAAACCCTTATCAGCTCCGATGCATCACCGGTCTTCATCGCCGGTCT...

CDS

Download CDS FASTA

2352 bp · LXL04_005416|LXL04_005416|OH1004|CDS

ATGGCTGAAGGGATCCAAAGCAATCCCCCTCTTCTTCTCCGACCCTCTCTCTCCATCTCGACGCAACTGGACACGGGAATGGCAGCCGCGTCAGGGTTTCTCCTGGTTCCTTCTATCGATCGACAGAGGAGAGGAAAGTGGAAATGGCGGTCGCTTGGGGTTGTTCTCGCACTAGCTGCAATCGACGGTCGCACTAGCTGCAATCGACGGCGAGAAACCCTTATCAGCTCCGATGCATCACCGGTCTTCATCGCCGGTCT...

Protein

Download Protein FASTA

783 aa · LXL04_005416|LXL04_005416|OH1004|PROTEIN

MAEGIQSNPPLLLRPSLSISTQLDTGMAAASGFLLVPSIDRQRRGKWKWRSLGVVLALAAIDGRTSCNRRRETLISSDASPVFIAGLHRGTSDVNPQVSSLDGWIDGRTDVTGEGGAVAGFDDTASKVRVQRRTGDGDAEDERRCRLSEMIPKYHLNPWICSDASRASACSLPQVISRSIKTSIKKRPTTVCPQIQEDDDDFVDPPQRKKADEENQIDMKEEVKDESADVQSPEDILNVLMAEALSTYIENDRPFLGICL...

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_005416`
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_005416

Location Chr01:163134407-163141202 (+)

Description Similar to RCH2: Receptor-like protein kinase 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g24240`	Together with RGI2, RGI3, RGI4 and RGI5, acts as a receptor of RGF peptides (e.g. RGF1, GLV5/CLEL1/RGF2, GLV7/CLEL3/RGF3, GLV3/RGF4, GLV10/CLEL7/RGF5 and RGF10/CLELN), peptide hormones which maintain the postembryonic root stem cell niche by regulating the expression levels and patterns of the transcription factor PLETHORA (PLT, e.g. PLT1 and PLT2).	RGF1 INSENSITIVE 1 to 5, a group of LRR receptor-like kinases, are essential for the perception of root meristem growth factor 1 in Arabidopsis thaliana.2016 · DOI: 10.1038/cr.2016.63
`At5g48940`	Together with RGI1, RGI3, RGI4 and RGI5, acts as a receptor of RGF peptides (e.g. RGF1, GLV5/CLEL1/RGF2, GLV7/CLEL3/RGF3, GLV3/RGF4, GLV10/CLEL7/RGF5 and RGF10/CLELN), peptide hormones which maintain the postembryonic root stem cell niche by regulating the expression levels and patterns of the transcription factor PLETHORA (PLT, e.g. PLT1 and PLT2).	RGF1 INSENSITIVE 1 to 5, a group of LRR receptor-like kinases, are essential for the perception of root meristem growth factor 1 in Arabidopsis thaliana.2016 · DOI: 10.1038/cr.2016.63
`At4g26900`	IGPS catalyzes the conversion of PRFAR and glutamine to IGP, AICAR and glutamate.	No verified direct reference in this release
`At1g34110`	Together with RGI1, RGI2, RGI3 and RGI4, acts as a receptor of RGF1, a peptide hormone that maintains the postembryonic root stem cell niche by regulating the expression levels and patterns of the transcription factor PLETHORA (PLT).	RGF1 INSENSITIVE 1 to 5, a group of LRR receptor-like kinases, are essential for the perception of root meristem growth factor 1 in Arabidopsis thaliana.2016 · DOI: 10.1038/cr.2016.63
`At5g56040`	Receptor with a serine/threonine-protein kinase activity (By similarity).	A novel pollen-pistil interaction conferring high-temperature tolerance during reproduction via CLE45 signaling.2013 · DOI: 10.1016/j.cub.2013.06.060 RGF1 INSENSITIVE 1 to 5, a group of LRR receptor-like kinases, are essential for the perception of root meristem growth factor 1 in Arabidopsis thaliana.2016 · DOI: 10.1038/cr.2016.63 Arabidopsis MAKR5 is a positive effector of BAM3-dependent CLE45 signaling.2016 · DOI: 10.15252/embr.201642450

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_005416 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000105 L-histidine biosynthetic process Biological Process

GO:0009266 response to temperature stimulus Biological Process

GO:0009755 hormone-mediated signaling pathway Biological Process

GO:0010074 maintenance of meristem identity Biological Process

GO:0010078 maintenance of root meristem identity Biological Process

GO:0010082 regulation of root meristem growth Biological Process

GO:0010449 root meristem growth Biological Process

GO:0080092 regulation of pollen tube growth Biological Process

GO:2000280 regulation of root development Biological Process

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009536 plastid Cellular Component

KEGG gene cross-reference

ath:AT1G34110

ath:AT3G24240

ath:AT4G26900

ath:AT5G48940

ath:AT5G56040

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.

View expression for this gene

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.

Nucleus0.344

Rank 1 · LXL04_005416 · OH-1004

Cell membrane0.314

Rank 2 · LXL04_005416 · OH-1004

Cytoplasm0.252

Rank 3 · LXL04_005416 · OH-1004

Endoplasmic reticulum0.152

Rank 4 · LXL04_005416 · OH-1004

Plastid0.093

Rank 5 · LXL04_005416 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

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

PF00117.35GATase241-274 aa

PF07714.24PK_Tyr_Ser-Thr344-435 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_005416	`PF00117.35`	GATase	241	274	5.8e-06	26.8
LXL04_005416	`PF07714.24`	PK_Tyr_Ser-Thr	344	435	3.2e-06	27.4

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
`Q9LHP4`	Arabidopsis thaliana	LRR receptor-like serine/threonine-protein kinase RGI1	63.248%	Swiss-Prot	weak database homology
`C0LGV1`	Arabidopsis thaliana	LRR receptor-like serine/threonine-protein kinase RGI2	56.849%	Swiss-Prot	weak database homology
`Q9SZ30`	Arabidopsis thaliana	Imidazole glycerol phosphate synthase hisHF, chloroplastic	64.912%	Swiss-Prot	weak database homology
`C0LGF5`	Arabidopsis thaliana	LRR receptor-like serine/threonine-protein kinase RGI5	48.000%	Swiss-Prot	weak database homology
`F4K6B8`	Arabidopsis thaliana	Leucine-rich repeat receptor-like serine/threonine-protein kinase RGI4	50.000%	Swiss-Prot	weak database homology

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