LXL04_022846 | RubberDandelionOmics

Gene overview

LXL04_022846

Reference: OH-1004 Chr: Chr05 Coordinates: 10722141-10728699 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2568 bp · LXL04_022846|LXL04_022846|OH1004|cDNA

ATGGCTTCCACTTCGTATACCATGGCTGTACTCTTGTTCTTGAGCTGCTTTCTGTGCTTTTACATTTCGCAATTTGCAGAAGCCGCTAACAATGTGAGTTACGATAGTCGGTCGCTCTTCATCGGAGGTGAAAGAAAGCTTCTTATTTCGGCTGCTATTCACTACCCTCGTAGTGTCCCTGCTATGTGGCCCGGATTGGTAAAAACAGCAAAAGAAGGAGGTATAGATGTGATAGAGACGTATGTATTCTGGAATGGTCA...

CDS

Download CDS FASTA

2568 bp · LXL04_022846|LXL04_022846|OH1004|CDS

ATGGCTTCCACTTCGTATACCATGGCTGTACTCTTGTTCTTGAGCTGCTTTCTGTGCTTTTACATTTCGCAATTTGCAGAAGCCGCTAACAATGTGAGTTACGATAGTCGGTCGCTCTTCATCGGAGGTGAAAGAAAGCTTCTTATTTCGGCTGCTATTCACTACCCTCGTAGTGTCCCTGCTATGTGGCCCGGATTGGTAAAAACAGCAAAAGAAGGAGGTATAGATGTGATAGAGACGTATGTATTCTGGAATGGTCA...

Protein

Download Protein FASTA

855 aa · LXL04_022846|LXL04_022846|OH1004|PROTEIN

MASTSYTMAVLLFLSCFLCFYISQFAEAANNVSYDSRSLFIGGERKLLISAAIHYPRSVPAMWPGLVKTAKEGGIDVIETYVFWNGHEPSPGNYYFGGRYDLPKFVKIVQDAGMLLILRIGPFVAAEWNFGGIPVWLHYVPGTVFRTDNEPFKHYMQNFTTLIVNMMKKDKFFASQGGPIILAQVENEYGFYETAYGEGGKSYTQWAAKMALSQNIGVPWIMCQQWDAPDPVINTCNSFYCDDFKPSYPTMPKIWTENWP...

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_022846`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_022846

Location Chr05:10722141-10728699 (-)

Description Similar to Os01g0875500: Beta-galactosidase 3

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g63810`	Beta-galactosidase 10.	No verified direct reference in this release
`At2g28470`	Beta-galactosidase 8.	No verified direct reference in this release
`At4g36360`	Beta-galactosidase 3.	No verified direct reference in this release
`At3g13750`	Beta-galactosidase 1.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0875500`	Beta-galactosidase 3.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_022846 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009827 plant-type cell wall modification Biological Process

GO:0010345 suberin biosynthetic process Biological Process

GO:0019388 galactose catabolic process Biological Process

GO:0005576 extracellular region Cellular Component

GO:0005773 vacuole 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:0009536 plastid Cellular Component

GO:0048046 apoplast Cellular Component

GO:0004565 beta-galactosidase activity Molecular Function

KEGG gene cross-reference

ath:AT2G28470

ath:AT3G13750

ath:AT4G36360

ath:AT5G63810

dosa:Os01g0875500

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.

Extracellular0.524

Rank 1 · LXL04_022846 · OH-1004

Lysosome / Vacuole0.155

Rank 2 · LXL04_022846 · OH-1004

Cytoplasm0.111

Rank 3 · LXL04_022846 · OH-1004

Cell membrane0.109

Rank 4 · LXL04_022846 · OH-1004

Endoplasmic reticulum0.109

Rank 5 · LXL04_022846 · 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.

PF01301.26Glyco_hydro_3538-343 aa

PF17834.8GHD366-422 aa

PF21467.4BetaGal_gal-bd634-721 aa

PF02140.24SUEL_Lectin771-854 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_022846	`PF01301.26`	Glyco_hydro_35	38	343	3e-116	389.2
LXL04_022846	`PF17834.8`	GHD	366	422	6.3e-24	84.2
LXL04_022846	`PF21467.4`	BetaGal_gal-bd	634	721	1.2e-26	93.4
LXL04_022846	`PF02140.24`	SUEL_Lectin	771	854	2.2e-12	47.9

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
`Q9FN08`	Arabidopsis thaliana	Beta-galactosidase 10	68.139%	Swiss-Prot	strong database homology
`Q9SCV4`	Arabidopsis thaliana	Beta-galactosidase 8	53.199%	Swiss-Prot	strong database homology
`Q9SCV9`	Arabidopsis thaliana	Beta-galactosidase 3	50.990%	Swiss-Prot	strong database homology
`Q9SCW1`	Arabidopsis thaliana	Beta-galactosidase 1	52.582%	Swiss-Prot	strong database homology
`Q5N8X6`	Oryza sativa subsp. japonica	Beta-galactosidase 3	62.470%	Swiss-Prot	strong database homology

JBrowse

View in Genome Browser

Gene Card