LXL04_026077 | RubberDandelionOmics

Gene overview

LXL04_026077

Reference: OH-1004 Chr: Chr05 Coordinates: 120640765-120643977 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1986 bp · LXL04_026077|LXL04_026077|OH1004|cDNA

ATGGTGGCGGGGAGAAATGCAGTAGAAATGGATAGTAACAATCACGACGGCAGCCCCCACAATCACCATTCGCAACCTCAACAGCAGCAGCGCCGCCCACGAGGCTTCGCTGCGGCGGGGATGGGCGTCTCCACCATTTCCACTACGATCAACACCAGTCCTAGGAGCGGTAGAAatgagagagagaaagagaaagaacGAACGAAGCTTCGAGAACGCCACCGCCGTGCCATCACCAGCCGTATGCTAGCCGGTCTCCG...

CDS

Download CDS FASTA

1986 bp · LXL04_026077|LXL04_026077|OH1004|CDS

ATGGTGGCGGGGAGAAATGCAGTAGAAATGGATAGTAACAATCACGACGGCAGCCCCCACAATCACCATTCGCAACCTCAACAGCAGCAGCGCCGCCCACGAGGCTTCGCTGCGGCGGGGATGGGCGTCTCCACCATTTCCACTACGATCAACACCAGTCCTAGGAGCGGTAGAAATGAGAGAGAGAAAGAGAAAGAACGAACGAAGCTTCGAGAACGCCACCGCCGTGCCATCACCAGCCGTATGCTAGCCGGTCTCCG...

Protein

Download Protein FASTA

661 aa · LXL04_026077|LXL04_026077|OH1004|PROTEIN

MVAGRNAVEMDSNNHDGSPHNHHSQPQQQQRRPRGFAAAGMGVSTISTTINTSPRSGRNEREKEKERTKLRERHRRAITSRMLAGLRQYGNFPLPARADMNDVLAALAREAGWTVDADGTTFRQSTPSSKLGVYPGTSVESPLSSSSLKSGSVKASLDFPSSVLRIDETPSPASLDSVVVPVRGTTEFEKYSSSPINSHDCLETNQLIQEGQITIEQGFNFSGTAYVPVYVMLGTGMINKSCQLIDRDAVRKELRLLNSL...

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_026077`
TK1151 ID	TkA06G028390
OH-1004 ID	LXL04_026077
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	98.600
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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_026077

Location Chr05:120640765-120643977 (-)

Description Similar to BAM8: Beta-amylase 8

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g45300`	Beta-amylase 8.	No verified direct reference in this release
`At2g45880`	Beta-amylase 7.	No verified direct reference in this release
`At4g00490`	Low beta-amylase activity.	No verified direct reference in this release
`At2g32290`	Beta-amylase 6.	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_026077 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000272 polysaccharide catabolic process Biological Process

GO:0005983 starch catabolic process Biological Process

GO:0048831 regulation of shoot system development Biological Process

GO:0005576 extracellular region Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009570 chloroplast stroma Cellular Component

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0016161 beta-amylase activity Molecular Function

GO:0016798 hydrolase activity, acting on glycosyl bonds Molecular Function

KEGG gene cross-reference

ath:AT2G32290

ath:AT2G45880

ath:AT4G00490

ath:AT5G45300

gmx:547931

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.

Nucleus0.483

Rank 1 · LXL04_026077 · OH-1004

Cytoplasm0.412

Rank 2 · LXL04_026077 · OH-1004

Cell membrane0.080

Rank 3 · LXL04_026077 · OH-1004

Plastid0.070

Rank 4 · LXL04_026077 · OH-1004

Endoplasmic reticulum0.049

Rank 5 · LXL04_026077 · 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.

PF05687.19BES1_N56-192 aa

PF01373.25Glyco_hydro_14231-623 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_026077	`PF05687.19`	BES1_N	56	192	1.7e-46	159.0
LXL04_026077	`PF01373.25`	Glyco_hydro_14	231	623	9.2e-94	315.5

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
`Q9FH80`	Arabidopsis thaliana	Beta-amylase 8	60.451%	Swiss-Prot	strong database homology
`O80831`	Arabidopsis thaliana	Beta-amylase 7	48.494%	Swiss-Prot	moderate database homology
`O65258`	Arabidopsis thaliana	Beta-amylase 2, chloroplastic	52.183%	Swiss-Prot	moderate database homology
`Q8L762`	Arabidopsis thaliana	Beta-amylase 6	44.018%	Swiss-Prot	moderate database homology

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