LXL04_038767 | RubberDandelionOmics

Gene overview

LXL04_038767

Reference: OH-1004 Chr: Chr09 Coordinates: 49979536-49980761 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

472 bp · LXL04_038767|LXL04_038767|OH1004|cDNA

ATGAgaattggaattggaattggaaaCGTAACACCAGGATGCATGGAAATGGAGGAGATTTCACGAACACCAGCTTCAAGCTTCTTGATGAAGATCTTTCAGTTAATGGGCTTTAGGTCAAATGGTGATACTATAATTGCTAACATGCTATTGATATTAAAGCTTGAAGGAGCTTGTGGTTCTTGTCCAAGCTTTGTAACAACCATGAAATTAGGCATCGAATGCCGCCTCATAGAGAAGATCCCTGAAATTGTAACAGT...

CDS

Download CDS FASTA

387 bp · LXL04_038767|LXL04_038767|OH1004|CDS

ATGAGAATTGGAATTGGAATTGGAAACGTAACACCAGGATGCATGGAAATGGAGGAGATTTCACGAACACCAGCTTCAAGCTTCTTGATGAAGATCTTTCAGTTAATGGGCTTTAGGTCAAATGGTGATACTATAATTGCTAACATGCTATTGATATTAAAGCTTGAAGGAGCTTGTGGTTCTTGTCCAAGCTTTGTAACAACCATGAAATTAGGCATCGAATGCCGCCTCATAGAGAAGATCCCTGAAATTGTAACAGT...

Protein

Download Protein FASTA

128 aa · LXL04_038767|LXL04_038767|OH1004|PROTEIN

MRIGIGIGNVTPGCMEMEEISRTPASSFLMKIFQLMGFRSNGDTIIANMLLILKLEGACGSCPSFVTTMKLGIECRLIEKIPEIVTVEPILDEETGLELKEEKIEKVLEEISPYFVGAAGGKVGNWCR

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_038767`
TK1151 ID	TkA04G463260
OH-1004 ID	LXL04_038767
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	96.000
Protein coverage (%)	TK1151 87.719 / OH-1004 78.125 Coverage and evidence Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.
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_038767

Location Chr09:49979536-49980761 (-)

Description Similar to NIFU2: NifU-like protein 2, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g49940`	Molecular scaffold for [Fe-S] cluster assembly of chloroplastic iron-sulfur proteins.	No verified direct reference in this release
`At4g25910`	Molecular scaffold for [Fe-S] cluster assembly of chloroplastic iron-sulfur proteins.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os12g0176200`	Molecular scaffold for [Fe-S] cluster assembly of chloroplastic iron-sulfur proteins.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_038767 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009658 chloroplast organization Biological Process

GO:0016226 iron-sulfur cluster assembly Biological Process

GO:0048564 photosystem I assembly Biological Process

GO:0051604 protein maturation Biological Process

GO:0005739 mitochondrion Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009570 chloroplast stroma Cellular Component

GO:0005198 structural molecule activity Molecular Function

GO:0005506 iron ion binding Molecular Function

GO:0051536 iron-sulfur cluster binding Molecular Function

GO:0051537 2 iron, 2 sulfur cluster binding Molecular Function

GO:0051539 4 iron, 4 sulfur cluster binding Molecular Function

KEGG gene cross-reference

ath:AT4G25910

ath:AT5G49940

dosa:Os12g0176200

dpo:6901885

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.

Cytoplasm0.280

Rank 1 · LXL04_038767 · OH-1004

Plastid0.269

Rank 2 · LXL04_038767 · OH-1004

Mitochondrion0.197

Rank 3 · LXL04_038767 · OH-1004

Nucleus0.142

Rank 4 · LXL04_038767 · OH-1004

Extracellular0.089

Rank 5 · LXL04_038767 · 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.

PF01106.23NifU51-88 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_038767	`PF01106.23`	NifU	51	88	4.8e-11	43.4

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
`Q93W20`	Arabidopsis thaliana	NifU-like protein 2, chloroplastic	70.423%	Swiss-Prot	moderate database homology
`Q84RQ7`	Arabidopsis thaliana	NifU-like protein 3, chloroplastic	58.442%	Swiss-Prot	moderate database homology
`Q84LK7`	Oryza sativa subsp. japonica	NifU-like protein 1, chloroplastic	61.842%	Swiss-Prot	moderate database homology

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