TkA06G164350 | RubberDandelionOmics

Gene overview

TkA06G164350

Reference: TK1151 Chr: Chr06 Coordinates: 43249670-43251671 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

897 bp · TkA06G164350|TK1151|cDNA

ATGCAACTCTTTGGAAGTTCTGAGATCAATCCATCTCTGCTGGTACCGACGGCATCAGGCAACAATACACACATGATGTATGTGTTGAATAGAAATGACGTTTGTTTGATTTACAGGGAGTGGAATCACCCTCTTTGTGCCCTCTATTCCAACCAGGATCATAAGCTCATGTTTGGTCTCCTTTTCTCTCTCAAATCCCTAACCGCAAAGATGGATCCATCTAGGTTTGTTTCATTTTACATGTACAATTCTAGGGATGA...

CDS

Download CDS FASTA

897 bp · TkA06G164350|TK1151|CDS

ATGCAACTCTTTGGAAGTTCTGAGATCAATCCATCTCTGCTGGTACCGACGGCATCAGGCAACAATACACACATGATGTATGTGTTGAATAGAAATGACGTTTGTTTGATTTACAGGGAGTGGAATCACCCTCTTTGTGCCCTCTATTCCAACCAGGATCATAAGCTCATGTTTGGTCTCCTTTTCTCTCTCAAATCCCTAACCGCAAAGATGGATCCATCTAGGTTTGTTTCATTTTACATGTACAATTCTAGGGATGA...

Protein

Download Protein FASTA

298 aa · TkA06G164350|TK1151|PROTEIN

MQLFGSSEINPSLLVPTASGNNTHMMYVLNRNDVCLIYREWNHPLCALYSNQDHKLMFGLLFSLKSLTAKMDPSRFVSFYMYNSRDEGVEKVVEFMDAYSINQEDFQSLMAMSKFQGRPSLLEGVLPAVKAALTKAYNKGSKLRVIRTADLITLPWIKKAPNNRVAAMLESVDDVALENQENNNSDAEDLDFLEGVEFHDAGDNYVGPLLTKGVPSLFSDLSPLYDHPGNSRTVGHWVFVVIDMKAGKCYYLDSLKHSTI...

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	`TkA06G164350`
TK1151 ID	TkA06G164350
OH-1004 ID	LXL04_027406
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	75.600
Protein coverage (%)	TK1151 35.906 / OH-1004 54.667 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 TkA06G164350

Location Chr06:43249670-43251671 (-)

Description Similar to RFC1: Replication factor C subunit 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g22010`	Plays a role as mediator of transcriptional gene silencing (TGS), DNA replication, DNA repair, hypersensitive response (HR) and telomere length regulation.	Arabidopsis replication factor C subunit 1 plays an important role in embryogenesis.2007 · PMID: 17556804 DNA replication factor C1 mediates genomic stability and transcriptional gene silencing in Arabidopsis.2010 · DOI: 10.1105/tpc.110.076349 Replication factor C1 (RFC1) is required for double-strand break repair during meiotic homologous recombination in Arabidopsis.2013 · DOI: 10.1111/tpj.12024 The DNA replication factor RFC1 is required for interference-sensitive meiotic crossovers in Arabidopsis thaliana.2012 · DOI: 10.1371/journal.pgen.1003039
`At1g80410`	Auxiliary subunit of the NatA N-alpha-acetyltransferase complex.	Protein N-terminal acetylation is required for embryogenesis in Arabidopsis.2016 · DOI: 10.1093/jxb/erw257 NatA is required for suspensor development in Arabidopsis.2016 · DOI: 10.1080/15592324.2016.1231293

Rice

Reference gene ID	Possible function	Papers / DOI
`Os11g0572100`	May be involved in DNA replication and thus regulate cell proliferation.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_027406 · 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:0000712 resolution of meiotic recombination intermediates Biological Process

GO:0006260 DNA replication Biological Process

GO:0006281 DNA repair Biological Process

GO:0006888 endoplasmic reticulum to Golgi vesicle-mediated transport Biological Process

GO:0006901 vesicle coating Biological Process

GO:0006974 DNA damage response Biological Process

GO:0040029 epigenetic regulation of gene expression Biological Process

GO:0048208 COPII vesicle coating Biological Process

GO:0051321 meiotic cell cycle Biological Process

GO:0099022 vesicle tethering Biological Process

GO:0005576 extracellular region Cellular Component

GO:0005634 nucleus Cellular Component

KEGG gene cross-reference

ath:AT5G22010

dosa:Os11g0572100

hsa:58485

mmu:245828

rno:287427

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.

Nucleus0.861

Rank 1 · TkA06G164350 · TK1151

Cytoplasm0.205

Rank 2 · TkA06G164350 · TK1151

Cell membrane0.040

Rank 3 · TkA06G164350 · TK1151

Mitochondrion0.028

Rank 4 · TkA06G164350 · TK1151

Endoplasmic reticulum0.026

Rank 5 · TkA06G164350 · TK1151

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF04099Sybindin24-74 aa

PF08519RFC183-139 aa

PF12569NatA_aux_su159-245 aa

PF02902Peptidase_C48235-284 aa

PF04099Sybindin244-267 aa

PF08519RFC1254-265 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA06G164350	`PF04099`	Sybindin	24	74	1.7e-11	45.1
TkA06G164350	`PF08519`	RFC1	83	139	2.2e-11	44.8
TkA06G164350	`PF12569`	NatA_aux_su	159	245	5.6e-11	42.8
TkA06G164350	`PF02902`	Peptidase_C48	235	284	0.00011	22.9
TkA06G164350	`PF04099`	Sybindin	244	267	1.7e-11	45.1
TkA06G164350	`PF08519`	RFC1	254	265	2.2e-11	44.8

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
`Q9C587`	Arabidopsis thaliana	sp\|Q9C587\|RFC1_ARATH Replication factor C subunit 1	49.200%	Swiss-Prot	Low
`Q8VZM1`	Arabidopsis thaliana	sp\|Q8VZM1\|NAA15_ARATH N-terminal acetyltransferase A complex auxiliary subunit NAA15	69.200%	Swiss-Prot	Low
`Q2R2B4`	Oryza sativa subsp. japonica	sp\|Q2R2B4\|RFC1_ORYSJ Replication factor C subunit 1	39.500%	Swiss-Prot	Medium

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