TkA05G067370 | RubberDandelionOmics

Gene overview

TkA05G067370

Reference: TK1151 Chr: Chr05 Coordinates: 17985044-17994618 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1516 bp · TkA05G067370|TK1151|cDNA

TAGAGCTTAAATCGTAATCCAAAATGGATAGGGTGAAAGAAAAAGAAACGACGTGGAATCACTCGCATCTCACTGTCCATTTGTCCCCCTTCATCCCCTTCTCCTCCGCCCCTCCCTGCTTCTCTGACACACAAGCGTAGATATGGCTTCCACCACGCTTCATTCACCGTTATCTCACACTCAGTCGCCGGCGGTTACTCGGACCAGTGCCTCTCTTCGCCAGATCACCGGCAATTCGTTGACGTGGAGCCGCGCGTTTG...

CDS

Download CDS FASTA

1674 bp · TkA05G067370|TK1151|CDS

ATGGCTTCCACCACGCTTCATTCACCGTTATCTCACACTCAGTCGCCGGCGGTTACTCGGACCAGTGCCTCTCTTCGCCAGATCACCGGCAATTCGTTGACGTGGAGCCGCGCGTTTGCTCCCGACCGTCTTCTTTCCGCCGTCTCCCATTCTTCTCTTAGAGATAGTTTCAATTTCGACTCTAGAAGTAAAGGTACCTCTAATTTTGATGAAGGAGTGAGAGGGTCTGTGAAGCCATTGATAACATGTGCTAGTGGGAC...

Protein

Download Protein FASTA

557 aa · TkA05G067370|TK1151|PROTEIN

MASTTLHSPLSHTQSPAVTRTSASLRQITGNSLTWSRAFAPDRLLSAVSHSSLRDSFNFDSRSKGTSNFDEGVRGSVKPLITCASGTEPVAAANLAPGTPVRPTSIMVIGATGTLGRQVVRRALDEGYDVRCLVRPRPAPADFLRDWGATVVNGDLTKPETIPATLVGVHTIIDCATGRPEEPIKTVSIIITFAVDWEGKVALIQCAKAMGIQKYVFFSIHNCDKHPEVPLMEIKYCTEKFLQDSGVNHVVIRLCGFMQG...

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	`TkA05G067370`
TK1151 ID	TkA05G067370
OH-1004 ID	LXL04_019596
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	97.200
Protein coverage (%)	TK1151 83.483 / OH-1004 97.859 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

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Basic Information and Functional Annotation

Gene ID TkA05G067370

Location Chr05:17985044-17994618 (+)

Description Similar to HCF244: Protein HIGH CHLOROPHYLL FLUORESCENCE PHENOTYPE 244, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g35250`	Auxiliary factor required, together with HCF173, for the biogenesis of photosystem II (PSII), especially for the synthesis of the reaction center proteins (e.g. D1), via the regulation of the corresponding mRNA (e.g. psbA) translation initiation (ribosomal loading) and stabilization.	ONE-HELIX PROTEIN2 (OHP2) Is Required for the Stability of OHP1 and Assembly Factor HCF244 and Is Functionally Linked to PSII Biogenesis.2018 · DOI: 10.1104/pp.18.00540 OHP1, OHP2, and HCF244 Form a Transient Functional Complex with the Photosystem II Reaction Center.2019 · DOI: 10.1104/pp.18.01231 Exploring the Link between Photosystem II Assembly and Translation of the Chloroplast psbA mRNA.2020 · DOI: 10.3390/plants9020152

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_019596 · 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:0010207 photosystem II assembly Biological Process

GO:0015979 photosynthesis Biological Process

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009523 photosystem II Cellular Component

GO:0009534 chloroplast thylakoid Cellular Component

GO:0009535 chloroplast thylakoid membrane Cellular Component

GO:0009570 chloroplast stroma Cellular Component

GO:0042651 thylakoid membrane Cellular Component

GO:0003743 translation initiation factor activity Molecular Function

GO:0016491 oxidoreductase activity Molecular Function

KEGG gene cross-reference

ath:AT4G35250

syn:slr0399

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.

Plastid0.962

Rank 1 · TkA05G067370 · TK1151

Mitochondrion0.050

Rank 2 · TkA05G067370 · TK1151

Cytoplasm0.032

Rank 3 · TkA05G067370 · TK1151

Nucleus0.023

Rank 4 · TkA05G067370 · TK1151

Peroxisome0.017

Rank 5 · TkA05G067370 · 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.

PF16912Glu_dehyd_C99-189 aa

PF05368NmrA105-362 aa

PF04321RmlD_sub_bind105-176 aa

PF01370Epimerase106-219 aa

PF02254TrkA_N106-187 aa

PF00106adh_short106-166 aa

PF010733Beta_HSD107-220 aa

PF13460NAD_binding_10110-267 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA05G067370	`PF16912`	Glu_dehyd_C	99	189	0.00016	21.9
TkA05G067370	`PF05368`	NmrA	105	362	2.2e-25	90.6
TkA05G067370	`PF04321`	RmlD_sub_bind	105	176	0.12	12.1
TkA05G067370	`PF01370`	Epimerase	106	219	1.8e-11	44.7
TkA05G067370	`PF02254`	TrkA_N	106	187	0.02	15.9
TkA05G067370	`PF00106`	adh_short	106	166	0.041	14.1
TkA05G067370	`PF01073`	3Beta_HSD	107	220	0.00024	20.9
TkA05G067370	`PF13460`	NAD_binding_10	110	267	1.7e-15	58.1
TkA05G067370	`PF04321`	RmlD_sub_bind	235	254	0.12	12.1
TkA05G067370	`PF01370`	Epimerase	269	302	1.8e-11	44.7

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
`O65502`	Arabidopsis thaliana	sp\|O65502\|HC244_ARATH Protein HIGH CHLOROPHYLL FLUORESCENCE PHENOTYPE 244, chloroplastic	82.200%	Swiss-Prot	High

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