TkA06G479590 | RubberDandelionOmics

Gene overview

TkA06G479590

Reference: TK1151 Chr: Chr06 Coordinates: 118829886-118834219 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2382 bp · TkA06G479590|TK1151|cDNA

GGAGAAGGGGGGAGGGGTAAACGTCGTGTGAGGCGCTACTCTTCAGATCTAACTTCAATTCAAACCCTACGCCCGCCTCTCTTCTCTCTCACGCAAAACGGCAAGAAGTAAAAACCCTAAATCGACATGTGAGGCGCCGATAGTGACAACCGCGCTAGAAGCACCGACAAGCGACAACCGAGCGTGAAGCGCCGCAGCTTCTCCGTCTTCTACAAGCAGGCGTCCCTGAGATTGAAGAGCTCCTGCCTCGATTTTCATTT...

CDS

Download CDS FASTA

1953 bp · TkA06G479590|TK1151|CDS

ATGAACACGAACGAAGCCAGAACTTCCGGCGGCGGTAAATTTCACACCGTGCAGCCTCTTCGCGACTTAAAATCAAATTGGGAGGTAGATCTTGCCAATGATCTCCAAGAGTATTTGCTAAAGATATGCTCCGGTGAGATTACCGGCGGTGAAGATGATAGTCACCTATCTGTGAATTTCGCGGAAGCTGCGTTGCTGCTTCAAGGTTCAATTCAGGTGTACAGCCGGAAGGTTGAATATCTGTATTCCTTGGTTGTTCA...

Protein

Download Protein FASTA

650 aa · TkA06G479590|TK1151|PROTEIN

MNTNEARTSGGGKFHTVQPLRDLKSNWEVDLANDLQEYLLKICSGEITGGEDDSHLSVNFAEAALLLQGSIQVYSRKVEYLYSLVVHALEFISQQSQQHDKPDNTPNQEEETTPGVTPIESDDSFWVSDDIPIDAKNSLDRSKDSNTPLNSHVKPPANLVVLEGDCLDTSGDSGELESYLLATNDLYKDFILLDGCDAITVDEFLSGNDEINKNKNNSRGSSIGSKSRKTFMSPSRRSGGLFMSPNKRSAGKGVDPGQSQ...

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	`TkA06G479590`
TK1151 ID	TkA06G479590
OH-1004 ID	LXL04_022529
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	99.800
Protein coverage (%)	TK1151 100.000 / OH-1004 51.465 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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA06G479590

Location Chr06:118829886-118834219 (-)

Description Similar to CAPH2: Condensin-2 complex subunit H2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g16730`	Regulatory subunit of the condensin-2 complex, a complex that seems to provide chromosomes with an additional level of organization and rigidity and in establishing mitotic chromosome architecture (By similarity).	Condensin II alleviates DNA damage and is essential for tolerance of boron overload stress in Arabidopsis.2011 · DOI: 10.1105/tpc.111.086314

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_022529 · 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:0006974 DNA damage response Biological Process

GO:0010032 meiotic chromosome condensation Biological Process

GO:0042545 cell wall modification Biological Process

GO:0045490 pectin catabolic process Biological Process

GO:0045739 positive regulation of DNA repair Biological Process

GO:0048358 mucilage pectin biosynthetic process Biological Process

GO:0051306 mitotic sister chromatid separation Biological Process

GO:0000793 condensed chromosome Cellular Component

GO:0000796 condensin complex Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0016020 membrane Cellular Component

KEGG gene cross-reference

ath:AT3G05610

ath:AT3G06830

ath:AT3G16730

ath:AT5G27870

ath:AT5G49180

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.

Nucleus0.962

Rank 1 · TkA06G479590 · TK1151

Cytoplasm0.161

Rank 2 · TkA06G479590 · TK1151

Mitochondrion0.015

Rank 3 · TkA06G479590 · TK1151

Cell membrane0.015

Rank 4 · TkA06G479590 · TK1151

Endoplasmic reticulum0.007

Rank 5 · TkA06G479590 · 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.

PF06278CNDH2_N14-132 aa

PF04825Rad21_Rec8_N65-106 aa

PF16869CNDH2_M94-124 aa

PF16869CNDH2_M154-295 aa

PF16869CNDH2_M385-403 aa

PF16858CNDH2_C453-584 aa

PF02616SMC_ScpA513-557 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA06G479590	`PF06278`	CNDH2_N	14	132	5.4e-41	140.0
TkA06G479590	`PF04825`	Rad21_Rec8_N	65	106	0.038	14.9
TkA06G479590	`PF16869`	CNDH2_M	94	124	1e-25	91.7
TkA06G479590	`PF16869`	CNDH2_M	154	295	1e-25	91.7
TkA06G479590	`PF16869`	CNDH2_M	385	403	1e-25	91.7
TkA06G479590	`PF16858`	CNDH2_C	453	584	2.4e-38	131.8
TkA06G479590	`PF02616`	SMC_ScpA	513	557	0.16	12.7

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9LUR0`	Arabidopsis thaliana	sp\|Q9LUR0\|CNDH2_ARATH Condensin-2 complex subunit H2	48.600%	Swiss-Prot	Medium

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