TkA07G090330 | RubberDandelionOmics

Gene overview

TkA07G090330

Reference: TK1151 Chr: Chr07 Coordinates: 23545369-23547003 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

843 bp · TkA07G090330|TK1151|cDNA

ATGGAAGCAACTAGCTCAAACAATGCAATTGGAAACAGGGTCAAAGATGTAAATAGAATCAGTGAACAAATTGTGGAAGAACTTGAGTTTGACAAAACTTCAGAGACAGCTTCTAAAGGGATCACTACATTTTCTGGAGATCTGCAGAACGAGTTCGTGTTCACCTGGCATGTGTTTCTGAAAGGAGATTTTACAGATATGCTCTATGGGTACAAATTTTCTGGAGATTTTTCTCCTGAAGAAGGGCATTACTATGATTC...

CDS

Download CDS FASTA

843 bp · TkA07G090330|TK1151|CDS

ATGGAAGCAACTAGCTCAAACAATGCAATTGGAAACAGGGTCAAAGATGTAAATAGAATCAGTGAACAAATTGTGGAAGAACTTGAGTTTGACAAAACTTCAGAGACAGCTTCTAAAGGGATCACTACATTTTCTGGAGATCTGCAGAACGAGTTCGTGTTCACCTGGCATGTGTTTCTGAAAGGAGATTTTACAGATATGCTCTATGGGTACAAATTTTCTGGAGATTTTTCTCCTGAAGAAGGGCATTACTATGATTC...

Protein

Download Protein FASTA

280 aa · TkA07G090330|TK1151|PROTEIN

MEATSSNNAIGNRVKDVNRISEQIVEELEFDKTSETASKGITTFSGDLQNEFVFTWHVFLKGDFTDMLYGYKFSGDFSPEEGHYYDSSRILLDPYAKAVLSREEFGVLGPDDDCWSQMACKVPSNQEFDWEGDLPLSFAQRDLVIYEMHVRGFTRHESSKTESPGTYLGVVDKLDHLKVHGLYELHPPTKKTQNLKGFGFKVIQENVQVVENGDVEMSKFKDGNHMFYYGSVTTEFATELLLRILQRKDSYGFYNGSVPT...

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	`TkA07G090330`
TK1151 ID	TkA07G090330
OH-1004 ID	LXL04_017919
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	80.900
Protein coverage (%)	TK1151 55.714 / OH-1004 16.253 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 TkA07G090330

Location Chr07:23545369-23547003 (-)

Description Similar to ISA1: Isoamylase 1, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g39930`	Involved in the trimming of pre-amylopectin chains.	No verified direct reference in this release
`At4g09020`	Involved in starch catabolism.	Evidence for distinct mechanisms of starch granule breakdown in plants.2006 · DOI: 10.1074/jbc.m513661200 Further evidence for the mandatory nature of polysaccharide debranching for the aggregation of semicrystalline starch and for overlapping functions of debranching enzymes in Arabidopsis leaves.2008 · DOI: 10.1104/pp.108.129379 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

Rice

Reference gene ID	Possible function	Papers / DOI
`Os08g0520900`	Starch-debranching enzyme involved in amylopectin biosynthesis in endosperm.	Complementation of sugary-1 phenotype in rice endosperm with the wheat isoamylase1 gene supports a direct role for isoamylase1 in amylopectin biosynthesis.2005 · DOI: 10.1104/pp.104.051359 Structural and enzymatic characterization of the isoamylase1 homo-oligomer and the isoamylase1-isoamylase2 hetero-oligomer from rice endosperm.2006 · DOI: 10.1007/s00425-006-0331-z Functional diversity of isoamylase oligomers: the ISA1 homo-oligomer is essential for amylopectin biosynthesis in rice endosperm.2011 · DOI: 10.1104/pp.111.173435
`Os09g0469400`	Starch-debranching enzyme that plays a role in the degradation of transitory starch during the night in leaf blades, facilitates the formation of spherical amyloplasts containing compound granules in the endosperm, and affects morphological characteristics of plastids.	Rice debranching enzyme isoamylase3 facilitates starch metabolism and affects plastid morphogenesis.2011 · DOI: 10.1093/pcp/pcr058

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_017919 · 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:0005983 starch catabolic process Biological Process

GO:0009660 amyloplast organization Biological Process

GO:0010021 amylopectin biosynthetic process Biological Process

GO:0019252 starch biosynthetic process Biological Process

GO:0009501 amyloplast Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009569 chloroplast starch grain Cellular Component

GO:0009570 chloroplast stroma Cellular Component

GO:0010368 chloroplast isoamylase complex Cellular Component

GO:0043033 isoamylase complex Cellular Component

GO:0019156 isoamylase activity Molecular Function

KEGG gene cross-reference

ath:AT2G39930

ath:AT4G09020

dosa:Os08g0520900

dosa:Os09g0469400

zma:542318

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.

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.

Cytoplasm0.416

Rank 1 · TkA07G090330 · TK1151

Nucleus0.229

Rank 2 · TkA07G090330 · TK1151

Extracellular0.151

Rank 3 · TkA07G090330 · TK1151

Mitochondrion0.119

Rank 4 · TkA07G090330 · TK1151

Endoplasmic reticulum0.099

Rank 5 · TkA07G090330 · 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.

PF02922CBM_4855-96 aa

PF02922CBM_48107-152 aa

PF02922CBM_48245-271 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA07G090330	`PF02922`	CBM_48	55	96	7e-06	27.0
TkA07G090330	`PF02922`	CBM_48	107	152	7e-06	27.0
TkA07G090330	`PF02922`	CBM_48	245	271	7e-06	27.0

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
`O04196`	Arabidopsis thaliana	sp\|O04196\|ISOA1_ARATH Isoamylase 1, chloroplastic	76.600%	Swiss-Prot	Low
`Q9M0S5`	Arabidopsis thaliana	sp\|Q9M0S5\|ISOA3_ARATH Isoamylase 3, chloroplastic	36.800%	Swiss-Prot	Low
`D0TZF0`	Oryza sativa subsp. japonica	sp\|D0TZF0\|ISOA1_ORYSJ Isoamylase 1, chloroplastic	58.600%	Swiss-Prot	Low
`B9G434`	Oryza sativa subsp. japonica	sp\|B9G434\|ISOA3_ORYSJ Isoamylase 3, chloroplastic	42.900%	Swiss-Prot	Low

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