LXL04_008700 | RubberDandelionOmics

Gene overview

LXL04_008700

Reference: OH-1004 Chr: Chr02 Coordinates: 106436641-106441230 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1236 bp · LXL04_008700|LXL04_008700|OH1004|cDNA

ATGATACGTGGTGGCGGTGGCTCTAATTCACGTCTGTTCAAGCTCTGTATCCCTTGCAATAGTTTGAATTCAGGGAAGTACCTAATCGGGCACAGGTGGAGGAAGGAAACTGTTGCAGAAGCTTCAATGGTGGAAGTGGGTATGCCCGCGAGTGATGCTGTTGCTGCTGCATCTTCAATCGAGTCCAACGCACAGCCGCCTCCGCCTTCTGCAGCACCGCCTTCTAGTCGTCGGCCGTTCATCGCCTTCTACAGCACCGC...

CDS

Download CDS FASTA

1236 bp · LXL04_008700|LXL04_008700|OH1004|CDS

ATGATACGTGGTGGCGGTGGCTCTAATTCACGTCTGTTCAAGCTCTGTATCCCTTGCAATAGTTTGAATTCAGGGAAGTACCTAATCGGGCACAGGTGGAGGAAGGAAACTGTTGCAGAAGCTTCAATGGTGGAAGTGGGTATGCCCGCGAGTGATGCTGTTGCTGCTGCATCTTCAATCGAGTCCAACGCACAGCCGCCTCCGCCTTCTGCAGCACCGCCTTCTAGTCGTCGGCCGTTCATCGCCTTCTACAGCACCGC...

Protein

Download Protein FASTA

411 aa · LXL04_008700|LXL04_008700|OH1004|PROTEIN

MIRGGGGSNSRLFKLCIPCNSLNSGKYLIGHRWRKETVAEASMVEVGMPASDAVAAASSIESNAQPPPPSAAPPSSRRPFIAFYSTAASTFCSTAAFAATTCAGVQLRQARQEQRNLMEGLICSRIIPIRAYGNQGNTPLFPTYTSSKNRIFYGPIRMMGPSTSSNSKAGSIKPLAASSSGIFDNTLPSKEVLDLWQKADAVCFDVDSTVCVDEGIDELAEFCGAGKAVAEWTARAMGGSVPFEEALAARLSLFKPSSSK...

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_008700`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_008700

Location Chr02:106436641-106441230 (+)

Description Similar to PSP: Phosphoserine phosphatase, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g18640`	Catalyzes the last step in the plastidial phosphorylated pathway of serine biosynthesis (PPSB).	The phosphorylated pathway of serine biosynthesis is essential both for male gametophyte and embryo development and for root growth in Arabidopsis.2013 · DOI: 10.1105/tpc.113.112359

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_008700 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000096 sulfur amino acid metabolic process Biological Process

GO:0006563 L-serine metabolic process Biological Process

GO:0006564 L-serine biosynthetic process Biological Process

GO:0009555 pollen development Biological Process

GO:0009612 response to mechanical stimulus Biological Process

GO:0009793 embryo development ending in seed dormancy Biological Process

GO:0031667 response to nutrient levels Biological Process

GO:0033574 response to testosterone Biological Process

GO:0048364 root development Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

GO:0009507 chloroplast Cellular Component

KEGG gene cross-reference

ath:AT1G18640

bta:533630

hsa:5723

mmu:100678

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

Open Annotation Module

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.

Plastid0.949

Rank 1 · LXL04_008700 · OH-1004

Mitochondrion0.067

Rank 2 · LXL04_008700 · OH-1004

Nucleus0.029

Rank 3 · LXL04_008700 · OH-1004

Cytoplasm0.023

Rank 4 · LXL04_008700 · OH-1004

Cell membrane0.013

Rank 5 · LXL04_008700 · 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.

PF00702.33Hydrolase200-371 aa

PF12710.14HAD203-371 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_008700	`PF00702.33`	Hydrolase	200	371	5e-18	66.9
LXL04_008700	`PF12710.14`	HAD	203	371	4.2e-13	50.8

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`O82796`	Arabidopsis thaliana	Phosphoserine phosphatase, chloroplastic	66.216%	Swiss-Prot	strong database homology

JBrowse

View in Genome Browser

Gene Card