TkA03G586820 | RubberDandelionOmics

Gene overview

TkA03G586820

Reference: TK1151 Chr: Chr03 Coordinates: 149125254-149126362 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

818 bp · TkA03G586820|TK1151|cDNA

ATTTCTAAATATAGAAATTTTACAAATATTTCTACTGCTATACTCCGATTCCTTTTTCAGTGCCTTTTAAATCGTTTAATTGTTAGACCATTCAAACAAGAGACCAATTCCTTTCCTCTTTTTAAACACTCCACAAATCTACAACGGCCGCTGAAGCTTACAGCATCTACGGAAGCTCCGTTCAAAGTTTACCAGAGATCGACGACTTTAAAGACGTGGATGTGGAATTACCGGCGAAAGCAACTTCAGCAACCGATTCA...

CDS

Download CDS FASTA

480 bp · TkA03G586820|TK1151|CDS

ATTTCTAAATATAGAAATTTTACAAATATTTCTACTGCTATACTCCGATTCCTTTTTCAGTGCCTTTTAAATCGTTTAATTGTTAGACCATTCAAACAAGAGACCAATTCCTTTCCTCTTTTTAAACACTCCACAAATCTACAACGGCCGCTGAAGCTTACAGCATCTACGGAAGCTCCGTTCAAAGTTTACCAGAGATCGACGACTTTAAAGACGTGGATGTGGAATTACCGGCGAAAGCAACTTCAGCAACCGATTCA...

Protein

Download Protein FASTA

159 aa · TkA03G586820|TK1151|PROTEIN

ISKYRNFTNISTAILRFLFQCLLNRLIVRPFKQETNSFPLFKHSTNLQRPLKLTASTEAPFKVYQRSTTLKTWMWNYRRKQLQQPIQELQEKIDELAALVFTVVWLPPPTESISPEGYMPRDLYNLNSRYGNVEELKALVKKFHQAGIRVLGDAVINHS

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	`TkA03G586820`
TK1151 ID	TkA03G586820
OH-1004 ID	LXL04_012577
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	98.600
Protein coverage (%)	TK1151 44.654 / OH-1004 36.788 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	TK1151 / GWHBCHF00000000

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SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA03G586820

Location Chr03:149125254-149126362 (-)

Description Similar to AMY3: Alpha-amylase 3, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g69830`	Possesses endoamylolytic activity in vitro, but seems not required for breakdown of transitory starch in leaves.	alpha-Amylase is not required for breakdown of transitory starch in Arabidopsis leaves.2005 · DOI: 10.1074/jbc.m413638200 Starch granule biosynthesis in Arabidopsis is abolished by removal of all debranching enzymes but restored by the subsequent removal of an endoamylase.2008 · DOI: 10.1105/tpc.108.063487 Arabidopsis thaliana AMY3 is a unique redox-regulated chloroplastic α-amylase.2013 · DOI: 10.1074/jbc.m113.514794 Regulation of Leaf Starch Degradation by Abscisic Acid Is Important for Osmotic Stress Tolerance in Plants.2016 · DOI: 10.1105/tpc.16.00143
`At1g76130`	Probable alpha-amylase that does not seem to be required for breakdown of transitory starch in leaves.	alpha-Amylase is not required for breakdown of transitory starch in Arabidopsis leaves.2005 · DOI: 10.1074/jbc.m413638200
`At4g25000`	Possesses alpha-amylase activity in vitro, but seems not required for breakdown of transitory starch in leaves.	An alpha-amylase (At4g25000) in Arabidopsis leaves is secreted and induced by biotic and abiotic stress.2007 · DOI: 10.1111/j.1365-3040.2006.01624.x

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_012577 · GCA_047496595.1_OSU_TarKok_2.0. These OH1004 annotations are retrieved through ID mapping; the Arabidopsis/rice table below uses protein alignments from the query reference.

GO annotations (OH1004 source)

GO:0005975 carbohydrate metabolic process Biological Process

GO:0005983 starch catabolic process Biological Process

GO:0005987 sucrose catabolic process Biological Process

GO:0005576 extracellular region Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009570 chloroplast stroma Cellular Component

GO:0004556 alpha-amylase activity Molecular Function

GO:0005509 calcium ion binding Molecular Function

KEGG gene cross-reference

ath:AT1G69830

dosa:Os09g0457400

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.

Plastid0.867

Rank 1 · TkA03G586820 · TK1151

Mitochondrion0.093

Rank 2 · TkA03G586820 · TK1151

Cytoplasm0.040

Rank 3 · TkA03G586820 · TK1151

Extracellular0.033

Rank 4 · TkA03G586820 · TK1151

Lysosome / Vacuole0.018

Rank 5 · TkA03G586820 · TK1151

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.

PF25610HR1_TOCA77-95 aa

PF08954Trimer_CC80-96 aa

PF00128Alpha-amylase89-159 aa

PF02324Glyco_hydro_70112-155 aa

PF13893RRM_5119-149 aa

PF25610HR1_TOCA122-143 aa

PF08954Trimer_CC134-141 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA03G586820	`PF25610`	HR1_TOCA	77	95	0.22	12.5
TkA03G586820	`PF08954`	Trimer_CC	80	96	1.2	9.6
TkA03G586820	`PF00128`	Alpha-amylase	89	159	1.2e-13	51.7
TkA03G586820	`PF02324`	Glyco_hydro_70	112	155	0.27	10.0
TkA03G586820	`PF13893`	RRM_5	119	149	0.26	11.7
TkA03G586820	`PF25610`	HR1_TOCA	122	143	0.22	12.5
TkA03G586820	`PF08954`	Trimer_CC	134	141	1.2	9.6

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
`Q94A41`	Arabidopsis thaliana	sp\|Q94A41\|AMY3_ARATH Alpha-amylase 3, chloroplastic	78.900%	Swiss-Prot	Low
`Q8LFG1`	Arabidopsis thaliana	sp\|Q8LFG1\|AMY2_ARATH Probable alpha-amylase 2	48.600%	Swiss-Prot	Low
`Q8VZ56`	Arabidopsis thaliana	sp\|Q8VZ56\|AMY1_ARATH Alpha-amylase 1	52.100%	Swiss-Prot	Low

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