LXL04_009289 | RubberDandelionOmics

Gene overview

LXL04_009289

Reference: OH-1004 Chr: Chr02 Coordinates: 122076515-122082477 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3069 bp · LXL04_009289|LXL04_009289|OH1004|cDNA

ATGGCGGATTTTCGAGTGAGTGTGCTGTTAATTGTACTGTGCGCGATTGCTGTGAGCGTGGAATCGAAGTATATGGTTTACGATACTGCACAGGGTGTTGTGAAGGGGAAGCTTAATGTTCATTTGGTAGCGCACACCCACGACGATGTTGGTTGGTTAAAAACCGTTGACCAGTACTATGTTGGATCGAATAACTCCATTCAGGGCGCATGCGTTCAAAACGTGCTCGATTCAACGATTCAAGCTCTGTTGGCTGACAA...

CDS

Download CDS FASTA

3069 bp · LXL04_009289|LXL04_009289|OH1004|CDS

ATGGCGGATTTTCGAGTGAGTGTGCTGTTAATTGTACTGTGCGCGATTGCTGTGAGCGTGGAATCGAAGTATATGGTTTACGATACTGCACAGGGTGTTGTGAAGGGGAAGCTTAATGTTCATTTGGTAGCGCACACCCACGACGATGTTGGTTGGTTAAAAACCGTTGACCAGTACTATGTTGGATCGAATAACTCCATTCAGGGCGCATGCGTTCAAAACGTGCTCGATTCAACGATTCAAGCTCTGTTGGCTGACAA...

Protein

Download Protein FASTA

1022 aa · LXL04_009289|LXL04_009289|OH1004|PROTEIN

MADFRVSVLLIVLCAIAVSVESKYMVYDTAQGVVKGKLNVHLVAHTHDDVGWLKTVDQYYVGSNNSIQGACVQNVLDSTIQALLADKNRKFIYVEQAFFQRWWRDQSEATQEIVKRLVSSGQLELINGGWCMHDEAAPHYIDMIDQTTYGHKFIKQQFNVTPRIGWQIDPFGHSAVQAYLLGAEVGFDSVFFGRIDYQDRNKRKGDKHLEVIWRGSKSLGSSSQIFAGAFPENYEPPTGFYFEVNDDSPIVQDDMDLFDY...

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_009289`
TK1151 ID	TkA03G416090
OH-1004 ID	LXL04_009289
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	98.800
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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_009289

Location Chr02:122076515-122082477 (+)

Description Similar to At5g13980: Probable alpha-mannosidase At5g13980

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g13980`	Liberates mannose from p-nitrophenyl-alpha-D-mannoside in vitro.	No verified direct reference in this release
`At3g26720`	Liberates mannose from p-nitrophenyl-alpha-D-mannoside in vitro.	No verified direct reference in this release
`At5g66150`	Liberates mannose from p-nitrophenyl-alpha-D-mannoside in vitro.	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_009289 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006013 mannose metabolic process Biological Process

GO:0000325 plant-type vacuole Cellular Component

GO:0000326 protein storage vacuole Cellular Component

GO:0005576 extracellular region Cellular Component

GO:0005773 vacuole Cellular Component

GO:0009505 plant-type cell wall Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0043202 lysosomal lumen Cellular Component

GO:0048046 apoplast Cellular Component

GO:0099503 secretory vesicle Cellular Component

GO:0004559 alpha-mannosidase activity Molecular Function

GO:0030246 carbohydrate binding Molecular Function

KEGG gene cross-reference

ath:AT3G26720

ath:AT5G13980

ath:AT5G66150

cpoc:100718205

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.

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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.

Lysosome / Vacuole0.398

Rank 1 · LXL04_009289 · OH-1004

Extracellular0.282

Rank 2 · LXL04_009289 · OH-1004

Endoplasmic reticulum0.155

Rank 3 · LXL04_009289 · OH-1004

Cytoplasm0.143

Rank 4 · LXL04_009289 · OH-1004

Cell membrane0.132

Rank 5 · LXL04_009289 · 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.

PF01074.29Glyco_hydro_38N37-351 aa

PF09261.17Alpha-mann_mid355-446 aa

PF21260.4Laman-like_dom538-570 aa

PF07748.20Glyco_hydro_38C599-812 aa

PF17677.8Glyco_hydro38C2895-1001 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_009289	`PF01074.29`	Glyco_hydro_38N	37	351	1.9e-90	303.7
LXL04_009289	`PF09261.17`	Alpha-mann_mid	355	446	1.8e-18	67.1
LXL04_009289	`PF21260.4`	Laman-like_dom	538	570	5.9e-09	36.7
LXL04_009289	`PF07748.20`	Glyco_hydro_38C	599	812	7.2e-41	141.4
LXL04_009289	`PF17677.8`	Glyco_hydro38C2	895	1001	3.5e-08	34.1

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
`Q8LPJ3`	Arabidopsis thaliana	Probable alpha-mannosidase At5g13980	68.191%	Swiss-Prot	strong database homology
`P94078`	Arabidopsis thaliana	Alpha-mannosidase At3g26720	64.671%	Swiss-Prot	strong database homology
`Q9FKW9`	Arabidopsis thaliana	Probable alpha-mannosidase At5g66150	57.266%	Swiss-Prot	strong database homology

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