TkA01G634430 | RubberDandelionOmics

Gene overview

TkA01G634430

Reference: TK1151 Chr: Chr01 Coordinates: 160496721-160498647 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1615 bp · TkA01G634430|TK1151|cDNA

CAGACATTAAACAGATCTTCCGATTCCGTCTCTCTTCTCCCCTGCTCACCAAACCCCCCACTCTTTCTCTCTCATTCTTAGGGTTTTTAATTTCCTTTGTTTTCTCGTATAAAACCCATTTCCACACTTACTTCTTCTACTTTCTCTCTCGATTCACCGTCTTCTGTGGCCGCCGGCAACAGATCATACCGTTCATCATTTCTTCAATCGTGTCTACCCATTCTACAATTTAAAGCTTCATTTTCGCGTGAAGGAGAAGC...

CDS

Download CDS FASTA

1098 bp · TkA01G634430|TK1151|CDS

ATGCCATCTGTTGCTCAGCTTCATTACTCTCATGTCGGAAACAACAGTCATTTGAATCCTGCTAGGCATGTCCCTAATCTCAAGCTACCAAACCTTACCGGCATAAAAGTTTCATTCAACTCCTCTCGAGATCTTTCCTCTTCCTGTCTCCGATCAAAGCCGATCAACCTCGATTTACTATCAAACAGACAAGCCATTCCTTGTGCTGGAGGCGGCGGAGGAGCTGGTATCGGCCATGGCAGCGGCGGCGGAGGAGGTGA...

Protein

Download Protein FASTA

365 aa · TkA01G634430|TK1151|PROTEIN

MPSVAQLHYSHVGNNSHLNPARHVPNLKLPNLTGIKVSFNSSRDLSSSCLRSKPINLDLLSNRQAIPCAGGGGGAGIGHGSGGGGGDGGSGGRSEGGKSDDSSPIDGFGPIGAFLSGWRSRVAADPQFPFKVLMEEVVGVSACVLGDMASRPNFGLNELDFVFSTLVVGSIMNFTLMYLLAPTMGSASATLPFIFANSPTSHMFEPGAYSLINRLGTFIYKGTVFAAVGFGAGLVGTALSNGLIQMRKKMDPTFESPNKA...

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	`TkA01G634430`
TK1151 ID	TkA01G634430
OH-1004 ID	LXL04_019341
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	69.900
Protein coverage (%)	TK1151 91.233 / OH-1004 95.627 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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · TK1151

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Basic Information and Functional Annotation

Gene ID TkA01G634430

Location Chr01:160496721-160498647 (+)

Description Similar to RER3: Protein RETICULATA-RELATED 3, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g08640`	May play a role in leaf development.	Functional Redundancy and Divergence within the Arabidopsis RETICULATA-RELATED Gene Family.2013 · DOI: 10.1104/pp.113.217323
`At3g08630`	May play a role in leaf development.	No verified direct reference in this release
`At2g37860`	May play a role in leaf development.	The lower cell density of leaf parenchyma in the Arabidopsis thaliana mutant lcd1-1 is associated with increased sensitivity to ozone and virulent Pseudomonas syringae.2003 · DOI: 10.1046/j.1365-313x.2003.01795.x Mutations in the RETICULATA gene dramatically alter internal architecture but have little effect on overall organ shape in Arabidopsis leaves.2006 · DOI: 10.1093/jxb/erl063
`At5g22790`	May play a role in leaf development.	Functional Redundancy and Divergence within the Arabidopsis RETICULATA-RELATED Gene Family.2013 · DOI: 10.1104/pp.113.217323
`At3g56140`	May play a role in leaf development.	Functional Redundancy and Divergence within the Arabidopsis RETICULATA-RELATED Gene Family.2013 · DOI: 10.1104/pp.113.217323

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_019341 · 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:0000302 response to reactive oxygen species Biological Process

GO:0009648 photoperiodism Biological Process

GO:0009658 chloroplast organization Biological Process

GO:0009793 embryo development ending in seed dormancy Biological Process

GO:0015822 ornithine transport Biological Process

GO:0048366 leaf development Biological Process

GO:0099402 plant organ development Biological Process

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005829 cytosol Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009536 plastid Cellular Component

GO:0009706 chloroplast inner membrane Cellular Component

KEGG gene cross-reference

ath:AT2G37860

ath:AT3G08630

ath:AT3G08640

ath:AT5G12470

ath:AT5G22790

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.

Plastid0.905

Rank 1 · TkA01G634430 · TK1151

Mitochondrion0.078

Rank 2 · TkA01G634430 · TK1151

Nucleus0.031

Rank 3 · TkA01G634430 · TK1151

Cytoplasm0.021

Rank 4 · TkA01G634430 · TK1151

Cell membrane0.013

Rank 5 · TkA01G634430 · 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.

PF11891RETICULATA-like121-288 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G634430	`PF11891`	RETICULATA-like	121	288	3.2e-62	210.2

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
`Q9C9Z2`	Arabidopsis thaliana	sp\|Q9C9Z2\|RER3_ARATH Protein RETICULATA-RELATED 3, chloroplastic	73.600%	Swiss-Prot	Medium
`Q9C9Z3`	Arabidopsis thaliana	sp\|Q9C9Z3\|RER2_ARATH Protein RETICULATA-RELATED 2, chloroplastic	71.900%	Swiss-Prot	Medium
`B9DFK5`	Arabidopsis thaliana	sp\|B9DFK5\|RETIC_ARATH Protein RETICULATA, chloroplastic	36.500%	Swiss-Prot	Medium
`Q9FGP9`	Arabidopsis thaliana	sp\|Q9FGP9\|RER1_ARATH Protein RETICULATA-RELATED 1, chloroplastic	35.100%	Swiss-Prot	Medium
`Q8RWG3`	Arabidopsis thaliana	sp\|Q8RWG3\|RER6_ARATH Protein RETICULATA-RELATED 6, chloroplastic	27.500%	Swiss-Prot	Low

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