LXL04_022710 | RubberDandelionOmics

Gene overview

LXL04_022710

Reference: OH-1004 Chr: Chr05 Coordinates: 6134957-6153265 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

8481 bp · LXL04_022710|LXL04_022710|OH1004|cDNA

ATGGACAGTGGAAAAGGAAAAAGTGGTGGTGGTTATGGCCATGTAAATAACAAGGCTAATTATACCGATAGCCACGATGTGGACGCTCTTTTGGAGAAAGCATGTTTAGATAGAGAAAAAGATTTGGATAAATTAATGAATCCATACGGTGTTGTTACAGATGACACATATGAATTTCCTCCACTAGCTGCCATTCAAGTAAATCATGATCCCAATAATCTAGAAGAGGGACGTTCACCGTATTACACCGAACAATATTA...

CDS

Download CDS FASTA

8481 bp · LXL04_022710|LXL04_022710|OH1004|CDS

ATGGACAGTGGAAAAGGAAAAAGTGGTGGTGGTTATGGCCATGTAAATAACAAGGCTAATTATACCGATAGCCACGATGTGGACGCTCTTTTGGAGAAAGCATGTTTAGATAGAGAAAAAGATTTGGATAAATTAATGAATCCATACGGTGTTGTTACAGATGACACATATGAATTTCCTCCACTAGCTGCCATTCAAGTAAATCATGATCCCAATAATCTAGAAGAGGGACGTTCACCGTATTACACCGAACAATATTA...

Protein

Download Protein FASTA

2826 aa · LXL04_022710|LXL04_022710|OH1004|PROTEIN

MDSGKGKSGGGYGHVNNKANYTDSHDVDALLEKACLDREKDLDKLMNPYGVVTDDTYEFPPLAAIQVNHDPNNLEEGRSPYYTEQYYFVTASPRPKPKSLPLDMNTEILRLVDSAIMGQPESIDTLKNKVSGVEDCGDGFDQESFSFLLVDTLLTTMGGVESFDEDDDDNNKPSVMKNSKAAIISGELIPWLPWLTDSVGFMSPRTRLVRGLRTILHACTRNRALCCAAGLTMVLLETAEKIFLDDVGSTKQLHWNGGPL...

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_022710`
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_022710

Location Chr05:6134957-6153265 (+)

Description Similar to BCHC2: BEACH domain-containing protein C2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g45540`	BEACH domain-containing protein C2.	No verified direct reference in this release
`At3g60920`	May act as a negative factor in protein storage vacuole (PSV) trafficking regulation and plant effector triggered immunity (ETI).	BEACH-domain proteins act together in a cascade to mediate vacuolar protein trafficking and disease resistance in Arabidopsis.2015 · DOI: 10.1016/j.molp.2014.11.015

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_022710 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0005634 nucleus Cellular Component

GO:0005829 cytosol Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0016020 membrane Cellular Component

KEGG gene cross-reference

ath:AT2G45540

ath:AT3G60920

ddi:DDB_G0280971

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.

Cytoplasm0.417

Rank 1 · LXL04_022710 · OH-1004

Cell membrane0.280

Rank 2 · LXL04_022710 · OH-1004

Nucleus0.266

Rank 3 · LXL04_022710 · OH-1004

Golgi apparatus0.132

Rank 4 · LXL04_022710 · OH-1004

Lysosome / Vacuole0.104

Rank 5 · LXL04_022710 · 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.

PF15787.12DUF4704569-871 aa

PF15787.12DUF47041026-1161 aa

PF14844.13PH_BEACH1971-2056 aa

PF02138.24Beach2085-2361 aa

PF24814.2WD40_Prp192472-2570 aa

PF25175.2Beta-prop_WDR52480-2644 aa

PF24807.2WD40_CDC20-Fz2480-2553 aa

PF20426.5NBCH_WD402483-2697 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_022710	`PF15787.12`	DUF4704	569	871	1.8e-64	219.1
LXL04_022710	`PF15787.12`	DUF4704	1026	1161	1.8e-64	219.1
LXL04_022710	`PF14844.13`	PH_BEACH	1971	2056	1.6e-21	77.0
LXL04_022710	`PF02138.24`	Beach	2085	2361	1.3e-115	386.2
LXL04_022710	`PF24814.2`	WD40_Prp19	2472	2570	9.1e-10	38.8
LXL04_022710	`PF25175.2`	Beta-prop_WDR5	2480	2644	4e-11	43.5
LXL04_022710	`PF24807.2`	WD40_CDC20-Fz	2480	2553	1.2e-09	38.6
LXL04_022710	`PF20426.5`	NBCH_WD40	2483	2697	1.4e-19	70.9
LXL04_022710	`PF23414.2`	Beta-prop_EML_2	2483	2553	3.4e-07	30.6
LXL04_022710	`PF25173.2`	Beta-prop_WDR3_1st	2484	2550	3.3e-13	50.5
LXL04_022710	`PF24817.2`	WD40_WDHD1_1st	2485	2564	7.5e-10	39.2
LXL04_022710	`PF25172.2`	Beta-prop_WDR3_2nd	2485	2566	4.2e-07	30.2
LXL04_022710	`PF25174.2`	Beta-prop_THOC3	2489	2551	5.2e-10	39.5
LXL04_022710	`PF23381.2`	Beta-prop_IFT122_1st	2491	2551	2.3e-12	47.5
LXL04_022710	`PF25047.1`	Beta-prop_TEP1_2nd	2509	2552	2.7e-08	34.0
LXL04_022710	`PF00400.39`	WD40	2516	2548	8.8e-14	52.0

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
`F4IG73`	Arabidopsis thaliana	BEACH domain-containing protein C2	59.056%	Swiss-Prot	strong database homology
`F4JD14`	Arabidopsis thaliana	BEACH domain-containing protein C1	56.168%	Swiss-Prot	moderate database homology

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