LXL04_022410 | RubberDandelionOmics

Gene overview

LXL04_022410

Reference: OH-1004 Chr: Chr04 Coordinates: 149654444-149664850 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

6279 bp · LXL04_022410|LXL04_022410|OH1004|cDNA

ATGGAAGGAGAATTACCTCCAACTCCTATTAATCCGTCATCCAATATAGAGATTTCCAATCCTCTATATCTTGCATCTTCTGATAATCCAAGTACCGTTCTCGTATCAAAAGTCTTTGATGGCACTGGCTTTGCTTCGTGGAAGAGATCGATGACTCTTGCTCTTTCAGCTAAAAACAAAATGAGCTTCATTGATGGTTCTATTGAAGTTCCAGATGTTACCTCCACGACATTTCATAACTGGAACAGAGTTAATTCCAT...

CDS

Download CDS FASTA

6279 bp · LXL04_022410|LXL04_022410|OH1004|CDS

ATGGAAGGAGAATTACCTCCAACTCCTATTAATCCGTCATCCAATATAGAGATTTCCAATCCTCTATATCTTGCATCTTCTGATAATCCAAGTACCGTTCTCGTATCAAAAGTCTTTGATGGCACTGGCTTTGCTTCGTGGAAGAGATCGATGACTCTTGCTCTTTCAGCTAAAAACAAAATGAGCTTCATTGATGGTTCTATTGAAGTTCCAGATGTTACCTCCACGACATTTCATAACTGGAACAGAGTTAATTCCAT...

Protein

Download Protein FASTA

2092 aa · LXL04_022410|LXL04_022410|OH1004|PROTEIN

MEGELPPTPINPSSNIEISNPLYLASSDNPSTVLVSKVFDGTGFASWKRSMTLALSAKNKMSFIDGSIEVPDVTSTTFHNWNRVNSMVISWLLNSLSKDIAESVLFLQTAKEIWSEINQRYDQANGSLIYQIQQQLFSTSQGFDDFSTYFTKMKKIWDELNMIQEIPSCTCGTATKFKKFIEEQRCTWVHLLKNKGGAFSVIQAFGKQIQVQFNTMIKTIRSDNAFELRSSNEGTKYFESVEVSRALFFQSGLGKAYWGE...

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_022410`
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_022410

Location Chr04:149654444-149664850 (+)

Description Similar to VIII-1: Myosin-1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g19960`	Myosin heavy chain that is required for the cell cycle-regulated transport of various organelles and proteins for their segregation.	No verified direct reference in this release
`At1g50360`	Myosin heavy chain that is required for the cell cycle-regulated transport of various organelles and proteins for their segregation.	No verified direct reference in this release
`At5g54280`	Myosin heavy chain that is required for the cell cycle-regulated transport of various organelles and proteins for their segregation.	No verified direct reference in this release
`At4g27370`	Myosin heavy chain that is required for the cell cycle-regulated transport of various organelles and proteins for their segregation.	No verified direct reference in this release
`At5g43900`	Myosin heavy chain that is required for the cell cycle- regulated transport of various organelles and proteins for their segregation.	Peroxisomal localization of a myosin XI isoform in Arabidopsis thaliana.2005 · DOI: 10.1093/pcp/pci085 Two class XI myosins function in organelle trafficking and root hair development in Arabidopsis.2008 · DOI: 10.1104/pp.107.113654 A comparative study of the involvement of 17 Arabidopsis myosin family members on the motility of Golgi and other organelles.2009 · DOI: 10.1104/pp.109.136853 Myosin XIK is a major player in cytoplasm dynamics and is regulated by two amino acids in its tail.2012 · DOI: 10.1093/jxb/err265

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_022410 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006897 endocytosis Biological Process

GO:0007015 actin filament organization Biological Process

GO:0010082 regulation of root meristem growth Biological Process

GO:0010090 trichome morphogenesis Biological Process

GO:0030048 actin filament-based movement Biological Process

GO:0048467 gynoecium development Biological Process

GO:0048767 root hair elongation Biological Process

GO:0051645 Golgi localization Biological Process

GO:0051646 mitochondrion localization Biological Process

GO:0060151 peroxisome localization Biological Process

GO:0090436 leaf pavement cell development Biological Process

GO:0005634 nucleus Cellular Component

KEGG gene cross-reference

ath:AT1G50360

ath:AT3G19960

ath:AT4G27370

ath:AT5G43900

ath:AT5G54280

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.

Cytoplasm0.574

Rank 1 · LXL04_022410 · OH-1004

Nucleus0.321

Rank 2 · LXL04_022410 · OH-1004

Plastid0.128

Rank 3 · LXL04_022410 · OH-1004

Cell membrane0.060

Rank 4 · LXL04_022410 · OH-1004

Peroxisome0.055

Rank 5 · LXL04_022410 · 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.

PF14244.13Retrotran_gag_326-71 aa

PF14223.15Retrotran_gag_251-165 aa

PF25597.2SH3_retrovirus301-361 aa

PF07727.20RVT_2520-628 aa

PF07727.20RVT_2633-704 aa

PF25369.2SH3_VIII-1_N1062-1105 aa

PF00063.28Myosin_head1113-1771 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_022410	`PF14244.13`	Retrotran_gag_3	26	71	2.6e-18	66.2
LXL04_022410	`PF14223.15`	Retrotran_gag_2	51	165	6.1e-06	26.8
LXL04_022410	`PF25597.2`	SH3_retrovirus	301	361	3.3e-19	69.1
LXL04_022410	`PF07727.20`	RVT_2	520	628	5.8e-51	174.2
LXL04_022410	`PF07727.20`	RVT_2	633	704	5.8e-51	174.2
LXL04_022410	`PF25369.2`	SH3_VIII-1_N	1062	1105	9.1e-18	64.1
LXL04_022410	`PF00063.28`	Myosin_head	1113	1771	3e-232	773.4

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
`Q9LHE9`	Arabidopsis thaliana	Myosin-1	68.969%	Swiss-Prot	moderate database homology
`F4I507`	Arabidopsis thaliana	Myosin-3	68.407%	Swiss-Prot	moderate database homology
`F4K0A6`	Arabidopsis thaliana	Myosin-2	53.266%	Swiss-Prot	weak database homology
`F4JIU4`	Arabidopsis thaliana	Myosin-4	49.325%	Swiss-Prot	moderate database homology
`Q9LKB9`	Arabidopsis thaliana	Myosin-6	40.791%	Swiss-Prot	weak database homology

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