LXL04_010223 | RubberDandelionOmics

Gene overview

LXL04_010223

Reference: OH-1004 Chr: Chr02 Coordinates: 142406362-142412631 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2223 bp · LXL04_010223|LXL04_010223|OH1004|cDNA

ATGGGGACGATTTATCCAGATGATGATTACGATTACTTGTTAGATGATGATGACGATTACTTGTTAGATGATGATTACGATTACTTGTTCAAGGGTATTCTACTCGGCGATTCAGGTGTCGGTAAAACCAATCTTTTGTCACGATTCTCCAAGAACAAATTCAACCTCGAATCCGAACGCACCATCGGGGTTGAATTCGCCACCGCTAGCATCAACGTTGATGACACGATCATCAAAGCTCAAATTTGGGACACCTCCGG...

CDS

Download CDS FASTA

2223 bp · LXL04_010223|LXL04_010223|OH1004|CDS

ATGGGGACGATTTATCCAGATGATGATTACGATTACTTGTTAGATGATGATGACGATTACTTGTTAGATGATGATTACGATTACTTGTTCAAGGGTATTCTACTCGGCGATTCAGGTGTCGGTAAAACCAATCTTTTGTCACGATTCTCCAAGAACAAATTCAACCTCGAATCCGAACGCACCATCGGGGTTGAATTCGCCACCGCTAGCATCAACGTTGATGACACGATCATCAAAGCTCAAATTTGGGACACCTCCGG...

Protein

Download Protein FASTA

740 aa · LXL04_010223|LXL04_010223|OH1004|PROTEIN

MGTIYPDDDYDYLLDDDDDYLLDDDYDYLFKGILLGDSGVGKTNLLSRFSKNKFNLESERTIGVEFATASINVDDTIIKAQIWDTSGQERYRTITNSYCQGSVGALLIYDITRKGTFENVERWLQELRNHIDQNIVIMLVGNKLDQRHLRVVTIDEAKAFAKRENINLFMETSALDGLNVYNAFAELLTQIYYAAGKKDAKAFAHRKNINLFMETSALNISNVMNAFTKVVTQIKHVMCKKMADVKKVNDQMAMVEPKGQ...

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_010223`
TK1151 ID	TkA03G512400
OH-1004 ID	LXL04_010223
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	96.100
Protein coverage (%)	TK1151 85.627 / OH-1004 37.703 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_010223

Location Chr02:142406362-142412631 (+)

Description Similar to RAB11B: Ras-related protein Rab11B

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g15060`	Intracellular vesicle trafficking and protein transport.	No verified direct reference in this release
`At5g60860`	Intracellular vesicle trafficking and protein transport.	No verified direct reference in this release
`At5g45750`	Intracellular vesicle trafficking and protein transport.	No verified direct reference in this release
`At4g18430`	Intracellular vesicle trafficking and protein transport.	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_010223 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0015031 protein transport Biological Process

GO:0016192 vesicle-mediated transport Biological Process

GO:0042546 cell wall biogenesis Biological Process

GO:0005768 endosome Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0003924 GTPase activity Molecular Function

GO:0005525 GTP binding Molecular Function

KEGG gene cross-reference

ath:AT3G15060

ath:AT5G60860

nta:107770722

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.

Cytoplasm0.643

Rank 1 · LXL04_010223 · OH-1004

Nucleus0.253

Rank 2 · LXL04_010223 · OH-1004

Cell membrane0.111

Rank 3 · LXL04_010223 · OH-1004

Mitochondrion0.098

Rank 4 · LXL04_010223 · OH-1004

Lysosome / Vacuole0.059

Rank 5 · LXL04_010223 · 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.

PF00071.29Ras31-192 aa

PF00025.28Arf31-190 aa

PF08477.20Roc33-145 aa

PF00009.34GTP_EFTU53-184 aa

PF14223.15Retrotran_gag_2305-355 aa

PF00025.28Arf389-557 aa

PF10662.16PduV-EutP397-451 aa

PF00071.29Ras399-560 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_010223	`PF00071.29`	Ras	31	192	1.4e-116	386.3
LXL04_010223	`PF00025.28`	Arf	31	190	2.9e-20	73.2
LXL04_010223	`PF08477.20`	Roc	33	145	3.7e-65	218.2
LXL04_010223	`PF00009.34`	GTP_EFTU	53	184	1.6e-06	28.6
LXL04_010223	`PF14223.15`	Retrotran_gag_2	305	355	1e-12	48.8
LXL04_010223	`PF00025.28`	Arf	389	557	2.9e-20	73.2
LXL04_010223	`PF10662.16`	PduV-EutP	397	451	1.4e-07	32.1
LXL04_010223	`PF00071.29`	Ras	399	560	1.4e-116	386.3
LXL04_010223	`PF08477.20`	Roc	399	513	3.7e-65	218.2
LXL04_010223	`PF14223.15`	Retrotran_gag_2	693	734	1e-12	48.8

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
`Q9LK99`	Arabidopsis thaliana	Ras-related protein RABA1g	69.274%	Swiss-Prot	weak database homology
`Q9FJH0`	Arabidopsis thaliana	Ras-related protein RABA1f	58.636%	Swiss-Prot	weak database homology
`Q9FK68`	Arabidopsis thaliana	Ras-related protein RABA1c	65.263%	Swiss-Prot	weak database homology
`O49513`	Arabidopsis thaliana	Ras-related protein RABA1e	57.273%	Swiss-Prot	weak database homology

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