LXL04_012848 | RubberDandelionOmics

Gene overview

LXL04_012848

Reference: OH-1004 Chr: Chr03 Coordinates: 19693357-19694107 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

469 bp · LXL04_012848|LXL04_012848|OH1004|cDNA

TTAGACCGTCGTTCTCAAGGTTGCCATGTCATGTGGAGGCTGTGCTGGTGCCGTGAAGAGGGTTCTCACCAATATGGAAGGGGTGGAAACTTTTGACATTGACCTCGAGCAAAAAAAGGTAACAGTGAAAGGAAACGTAGACCCAGATGTGATTTTTCAGACCGTTTCCAAGACCGGGAAGAAGACGGAGTTTTGGCCGACGGAAGCGCCGTCATGTTGTGGAGGGAAGAAGTCGGAGGAGCCTGTTGCCGCGACATCGA...

CDS

Download CDS FASTA

444 bp · LXL04_012848|LXL04_012848|OH1004|CDS

ATGTCATGTGGAGGCTGTGCTGGTGCCGTGAAGAGGGTTCTCACCAATATGGAAGGGGTGGAAACTTTTGACATTGACCTCGAGCAAAAAAAGGTAACAGTGAAAGGAAACGTAGACCCAGATGTGATTTTTCAGACCGTTTCCAAGACCGGGAAGAAGACGGAGTTTTGGCCGACGGAAGCGCCGTCATGTTGTGGAGGGAAGAAGTCGGAGGAGCCTGTTGCCGCGACATCGAGTGAAGGCGGAGAGACGGTGGAACC...

Protein

Download Protein FASTA

147 aa · LXL04_012848|LXL04_012848|OH1004|PROTEIN

MSCGGCAGAVKRVLTNMEGVETFDIDLEQKKVTVKGNVDPDVIFQTVSKTGKKTEFWPTEAPSCCGGKKSEEPVAATSSEGGETVEPVTAPSSVAGKPVDPVVAPPSEAAKPVDPVIAPSPETEKVVKPLAAAPSCEAEKPVETVVA

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_012848`
TK1151 ID	TkA02G535530
OH-1004 ID	LXL04_012848
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 93.631 / OH-1004 100.000 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_012848

Location Chr03:19693357-19694107 (+)

Description Similar to CCH: Copper transport protein CCH

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g56240`	Involved in copper homeostasis.	No verified direct reference in this release
`At1g66240`	Plays an important role in copper homeostasis by conferring tolerance to excess of copper and subclinical copper deficiency during vegetative stage.	No verified direct reference in this release
`At5g27690`	Heavy-metal-binding protein.	No verified direct reference in this release
`At3g56891`	Heavy-metal-binding protein.	No verified direct reference in this release
`At1g06330`	Heavy-metal-binding protein.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_012848 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006825 copper ion transport Biological Process

GO:0006878 intracellular copper ion homeostasis Biological Process

GO:0046686 response to cadmium ion Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005773 vacuole Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0099503 secretory vesicle Cellular Component

GO:0016531 copper chaperone activity Molecular Function

KEGG gene cross-reference

ath:AT1G66240

ath:AT3G56240

ath:AT3G56891

ath:AT5G27690

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.

Cytoplasm0.704

Rank 1 · LXL04_012848 · OH-1004

Nucleus0.249

Rank 2 · LXL04_012848 · OH-1004

Cell membrane0.180

Rank 3 · LXL04_012848 · OH-1004

Mitochondrion0.083

Rank 4 · LXL04_012848 · OH-1004

Endoplasmic reticulum0.057

Rank 5 · LXL04_012848 · 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.

PF00403.33HMA1-53 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_012848	`PF00403.33`	HMA	1	53	4.1e-14	53.4

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`O82089`	Arabidopsis thaliana	Copper transport protein CCH	72.414%	Swiss-Prot	weak database homology
`Q94BT9`	Arabidopsis thaliana	Copper transport protein ATX1	65.079%	Swiss-Prot	weak database homology
`Q84J88`	Arabidopsis thaliana	Heavy metal-associated isoprenylated plant protein 36	42.373%	Swiss-Prot	weak database homology
`B3H6D0`	Arabidopsis thaliana	Heavy metal-associated isoprenylated plant protein 45	31.522%	Swiss-Prot	moderate database homology
`F4IC29`	Arabidopsis thaliana	Heavy metal-associated isoprenylated plant protein 28	37.500%	Swiss-Prot	moderate database homology

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