LXL04_019596 | RubberDandelionOmics

Gene overview

LXL04_019596

Reference: OH-1004 Chr: Chr04 Coordinates: 34828334-34835145 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1639 bp · LXL04_019596|LXL04_019596|OH1004|cDNA

ATGGCTTCCACCACGCTTCATTCACCGTTATCTCACACTCAGTCGCCGGCGGTTACTCGGACCAGTGCCTCTCTTCGCCAGATCACCGGCAATTCGTTGACGTGGAGCCGCGCGTTTGCTCCCGACCGCCTTCTTTCCGCCGTCTCCCATTCTTCTCTTAGAGATAGTTTCAATTTCGACTCTAGAAGTAAAGGTACCTCTAATTTTGATGAAGGAGTGAGAGGGTCTGTGAAGCCATTGATAACATGTGCTAGTGGGAC...

CDS

Download CDS FASTA

1404 bp · LXL04_019596|LXL04_019596|OH1004|CDS

ATGGCTTCCACCACGCTTCATTCACCGTTATCTCACACTCAGTCGCCGGCGGTTACTCGGACCAGTGCCTCTCTTCGCCAGATCACCGGCAATTCGTTGACGTGGAGCCGCGCGTTTGCTCCCGACCGCCTTCTTTCCGCCGTCTCCCATTCTTCTCTTAGAGATAGTTTCAATTTCGACTCTAGAAGTAAAGGTACCTCTAATTTTGATGAAGGAGTGAGAGGGTCTGTGAAGCCATTGATAACATGTGCTAGTGGGAC...

Protein

Download Protein FASTA

467 aa · LXL04_019596|LXL04_019596|OH1004|PROTEIN

MASTTLHSPLSHTQSPAVTRTSASLRQITGNSLTWSRAFAPDRLLSAVSHSSLRDSFNFDSRSKGTSNFDEGVRGSVKPLITCASGTEPVAAANLAPGTPVRPTSIMVIGATGTLGRQVVRRALDEGYDVRCLVRPRPAPADFLRDWGATVVNGDLTKPETIPATLVGVHTIIDCATGRPEEPIKTVDWEGKVALIQCAKAMGIQKYVFFSIHNCDKHPEVPLMEIKYCTEKFLQDSGVNHVVIRLCGFMQGLIGQYAVP...

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_019596`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_019596

Location Chr04:34828334-34835145 (+)

Description Similar to HCF244: Protein HIGH CHLOROPHYLL FLUORESCENCE PHENOTYPE 244, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g35250`	Auxiliary factor required, together with HCF173, for the biogenesis of photosystem II (PSII), especially for the synthesis of the reaction center proteins (e.g. D1), via the regulation of the corresponding mRNA (e.g. psbA) translation initiation (ribosomal loading) and stabilization.	ONE-HELIX PROTEIN2 (OHP2) Is Required for the Stability of OHP1 and Assembly Factor HCF244 and Is Functionally Linked to PSII Biogenesis.2018 · DOI: 10.1104/pp.18.00540 OHP1, OHP2, and HCF244 Form a Transient Functional Complex with the Photosystem II Reaction Center.2019 · DOI: 10.1104/pp.18.01231 Exploring the Link between Photosystem II Assembly and Translation of the Chloroplast psbA mRNA.2020 · DOI: 10.3390/plants9020152

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_019596 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0010207 photosystem II assembly Biological Process

GO:0015979 photosynthesis Biological Process

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009523 photosystem II Cellular Component

GO:0009534 chloroplast thylakoid Cellular Component

GO:0009535 chloroplast thylakoid membrane Cellular Component

GO:0009570 chloroplast stroma Cellular Component

GO:0042651 thylakoid membrane Cellular Component

GO:0003743 translation initiation factor activity Molecular Function

GO:0016491 oxidoreductase activity Molecular Function

KEGG gene cross-reference

ath:AT4G35250

syn:slr0399

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.

Plastid0.975

Rank 1 · LXL04_019596 · OH-1004

Mitochondrion0.035

Rank 2 · LXL04_019596 · OH-1004

Cytoplasm0.021

Rank 3 · LXL04_019596 · OH-1004

Nucleus0.020

Rank 4 · LXL04_019596 · OH-1004

Cell membrane0.013

Rank 5 · LXL04_019596 · 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.

PF05368.20NmrA105-354 aa

PF01370.28Epimerase106-211 aa

PF13460.13NAD_binding_10110-259 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_019596	`PF05368.20`	NmrA	105	354	8.6e-27	95.2
LXL04_019596	`PF01370.28`	Epimerase	106	211	5.1e-10	39.9
LXL04_019596	`PF13460.13`	NAD_binding_10	110	259	2e-16	61.1

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
`O65502`	Arabidopsis thaliana	Protein HIGH CHLOROPHYLL FLUORESCENCE PHENOTYPE 244, chloroplastic	86.919%	Swiss-Prot	strong database homology

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