LXL04_018488 | RubberDandelionOmics

Gene overview

LXL04_018488

Reference: OH-1004 Chr: Chr04 Coordinates: 13639806-13641196 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1143 bp · LXL04_018488|LXL04_018488|OH1004|cDNA

ATGGCTGACGGAGAAGATATTCAACCCCTTGTTTGCGATAATGGAACTGGAATGGTCAAGGCTGGATTCGCCGGAGACGATGCCCCACGAGCAGTTTTCCCTAGTATCGTCGGTCGCCCACGTCACACCGGAGTTATGGTCGGCATGGGGCAAAAAGATGCATATGTTGGGGACGAAGCACAGTCCAAAAGAGGTATTCTGACTTTGAAATACCCAATTGAACACGGTATCGTGAATAACTGGGATGATATGGAGAAGAT...

CDS

Download CDS FASTA

1143 bp · LXL04_018488|LXL04_018488|OH1004|CDS

ATGGCTGACGGAGAAGATATTCAACCCCTTGTTTGCGATAATGGAACTGGAATGGTCAAGGCTGGATTCGCCGGAGACGATGCCCCACGAGCAGTTTTCCCTAGTATCGTCGGTCGCCCACGTCACACCGGAGTTATGGTCGGCATGGGGCAAAAAGATGCATATGTTGGGGACGAAGCACAGTCCAAAAGAGGTATTCTGACTTTGAAATACCCAATTGAACACGGTATCGTGAATAACTGGGATGATATGGAGAAGAT...

Protein

Download Protein FASTA

380 aa · LXL04_018488|LXL04_018488|OH1004|PROTEIN

MADGEDIQPLVCDNGTGMVKAGFAGDDAPRAVFPSIVGRPRHTGVMVGMGQKDAYVGDEAQSKRGILTLKYPIEHGIVNNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMTQIMFETFNAPAMYVAIQAVLSLYASGRTTGIVLDSGDGVSHTVPIYEGYALPHAILRLDLAGRDLTDALMKILTERGYSFTTSAEREIVRDMKEKLAYIALDYEQELETAKTSSAVEKSYELPDGQVITIGAERFRCP...

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_018488`
TK1151 ID	TkA01G014020
OH-1004 ID	LXL04_018488
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	34.700
Protein coverage (%)	TK1151 69.159 / OH-1004 50.000 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_018488

Location Chr04:13639806-13641196 (+)

Description Similar to Actin

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g53750`	Actins are highly conserved proteins that are involved in various types of cell motility and are ubiquitously expressed in all eukaryotic cells.	No verified direct reference in this release
`At2g37620`	Actins are highly conserved proteins that are involved in various types of cell motility and are ubiquitously expressed in all eukaryotic cells.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0836000`	Actins are highly conserved proteins that are involved in various types of cell motility and are ubiquitously expressed in all eukaryotic cells.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_018488 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0048589 developmental growth Biological Process

GO:0048767 root hair elongation Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009505 plant-type cell wall Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0015629 actin cytoskeleton Cellular Component

GO:0005200 structural constituent of cytoskeleton Molecular Function

GO:0005524 ATP binding Molecular Function

KEGG gene cross-reference

ath:AT2G37620

ath:AT3G53750

dosa:Os03g0836000

ghi:107932458

ghi:107953109

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.

Cytoplasm0.694

Rank 1 · LXL04_018488 · OH-1004

Nucleus0.286

Rank 2 · LXL04_018488 · OH-1004

Cell membrane0.191

Rank 3 · LXL04_018488 · OH-1004

Mitochondrion0.057

Rank 4 · LXL04_018488 · OH-1004

Golgi apparatus0.045

Rank 5 · LXL04_018488 · 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.

PF00022.27Actin5-380 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_018488	`PF00022.27`	Actin	5	380	5.6e-144	480.4

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
`P0CJ47`	Arabidopsis thaliana	Actin-3	96.842%	Swiss-Prot	strong database homology
`P0CJ46`	Arabidopsis thaliana	Actin-1	96.842%	Swiss-Prot	strong database homology
`Q10AZ4`	Oryza sativa subsp. japonica	Actin-3	96.316%	Swiss-Prot	strong database homology

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