LXL04_002680 | RubberDandelionOmics

Gene overview

LXL04_002680

Reference: OH-1004 Chr: Chr01 Coordinates: 54526889-54528838 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

846 bp · LXL04_002680|LXL04_002680|OH1004|cDNA

ATGAAGTTCGGAAAGAGTTTAAGCTATCAAATCGAGGAAACTTTGCCTGAATGGAGAGACAAGTTCTTGTCTTACAAAGAACTGAAGAAACGATTGAAGCTTATCAAACCACAAGACAAATCCGGTGATGACTGTAACAGACCGGCGAAGCGGACTCGTTTTTCCTGCGAAGACTGTACGATTGCTGGTGGTGAAGAGATGTCGAGCGAAGAAGTTGATTTCGTTGAATTGCTGGAACAGGAAGTCGAGAAATTCAATTC...

CDS

Download CDS FASTA

846 bp · LXL04_002680|LXL04_002680|OH1004|CDS

ATGAAGTTCGGAAAGAGTTTAAGCTATCAAATCGAGGAAACTTTGCCTGAATGGAGAGACAAGTTCTTGTCTTACAAAGAACTGAAGAAACGATTGAAGCTTATCAAACCACAAGACAAATCCGGTGATGACTGTAACAGACCGGCGAAGCGGACTCGTTTTTCCTGCGAAGACTGTACGATTGCTGGTGGTGAAGAGATGTCGAGCGAAGAAGTTGATTTCGTTGAATTGCTGGAACAGGAAGTCGAGAAATTCAATTC...

Protein

Download Protein FASTA

281 aa · LXL04_002680|LXL04_002680|OH1004|PROTEIN

MKFGKSLSYQIEETLPEWRDKFLSYKELKKRLKLIKPQDKSGDDCNRPAKRTRFSCEDCTIAGGEEMSSEEVDFVELLEQEVEKFNSFFVEKEEEYIIKLKELQDSVMKSKDSNEEMIKIRKEIVDFHGEMVLLENYSALNYTGIVKILKKYDKRTGALLRLPFIQKVLQQPFFTTDLLYKLVKECEAMLDRHFPLTDGTGGGDEPTTSGAASEGPLKAKELAELEYMKSLYTKSTISALRALKEIRSKSSTVSVFSLPP...

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_002680`
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_002680

Location Chr01:54526889-54528838 (-)

Description Similar to SPX1: SPX domain-containing protein 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g20150`	Plays a positive role in plant adaptation to phosphate starvation.	Characterization of a sub-family of Arabidopsis genes with the SPX domain reveals their diverse functions in plant tolerance to phosphorus starvation.2008 · DOI: 10.1111/j.1365-313x.2008.03460.x SPX1 is a phosphate-dependent inhibitor of Phosphate Starvation Response 1 in Arabidopsis.2014 · DOI: 10.1073/pnas.1404654111
`At2g26660`	May inhibit PHR1 DNA-binding activity in a Pi-dependent manner.	SPX1 is a phosphate-dependent inhibitor of Phosphate Starvation Response 1 in Arabidopsis.2014 · DOI: 10.1073/pnas.1404654111

Rice

Reference gene ID	Possible function	Papers / DOI
`Os06g0603600`	Involved in plant adaptation to phosphate (Pi) starvation.	Involvement of OsSPX1 in phosphate homeostasis in rice.2009 · DOI: 10.1111/j.1365-313x.2008.03734.x Regulation of OsSPX1 and OsSPX3 on expression of OsSPX domain genes and Pi-starvation signaling in rice.2009 · DOI: 10.1111/j.1744-7909.2009.00834.x OsSPX1 suppresses the function of OsPHR2 in the regulation of expression of OsPT2 and phosphate homeostasis in shoots of rice.2010 · DOI: 10.1111/j.1365-313x.2010.04170.x Rice SPX1 and SPX2 inhibit phosphate starvation responses through interacting with PHR2 in a phosphate-dependent manner.2014 · DOI: 10.1073/pnas.1404680111 An SPX-RLI1 Module Regulates Leaf Inclination in Response to Phosphate Availability in Rice.2018 · DOI: 10.1105/tpc.17.00738
`UniProt: B8B4D0`	Involved in plant adaptation to phosphate (Pi) starvation (By similarity).	No verified direct reference in this release
`Os02g0202200`	Inhibits PHR2 DNA-binding activity via a phosphate (Pi)- dependent protein interaction.	Rice SPX1 and SPX2 inhibit phosphate starvation responses through interacting with PHR2 in a phosphate-dependent manner.2014 · DOI: 10.1073/pnas.1404680111 An SPX-RLI1 Module Regulates Leaf Inclination in Response to Phosphate Availability in Rice.2018 · DOI: 10.1105/tpc.17.00738

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_002680 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0016036 cellular response to phosphate starvation Biological Process

GO:0051511 negative regulation of unidimensional cell growth Biological Process

GO:0070417 cellular response to cold Biological Process

GO:0071456 cellular response to hypoxia Biological Process

GO:0080040 positive regulation of cellular response to phosphate starvation Biological Process

GO:2000024 regulation of leaf development Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005886 plasma membrane Cellular Component

KEGG gene cross-reference

ath:AT2G26660

ath:AT5G20150

dosa:Os02g0202200

dosa:Os06g0603600

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.

Nucleus0.611

Rank 1 · LXL04_002680 · OH-1004

Cytoplasm0.365

Rank 2 · LXL04_002680 · OH-1004

Cell membrane0.162

Rank 3 · LXL04_002680 · OH-1004

Endoplasmic reticulum0.045

Rank 4 · LXL04_002680 · OH-1004

Lysosome / Vacuole0.044

Rank 5 · LXL04_002680 · 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.

PF03105.25SPX1-37 aa

PF03105.25SPX116-168 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_002680	`PF03105.25`	SPX	1	37	2.5e-25	90.9
LXL04_002680	`PF03105.25`	SPX	116	168	2.5e-25	90.9

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
`Q8LBH4`	Arabidopsis thaliana	SPX domain-containing protein 1	65.480%	Swiss-Prot	strong database homology
`O48781`	Arabidopsis thaliana	SPX domain-containing protein 2	66.323%	Swiss-Prot	strong database homology
`Q69XJ0`	Oryza sativa subsp. japonica	SPX domain-containing protein 1	60.403%	Swiss-Prot	strong database homology
`B8B4D0`	Oryza sativa subsp. indica	SPX domain-containing protein 1	60.403%	Swiss-Prot	strong database homology
`Q6Z784`	Oryza sativa subsp. japonica	SPX domain-containing protein 2	56.643%	Swiss-Prot	strong database homology

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