TkA04G214210 | RubberDandelionOmics

Gene overview

TkA04G214210

Reference: TK1151 Chr: Chr04 Coordinates: 54827730-54830195 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1373 bp · TkA04G214210|TK1151|cDNA

TTACGCTTCAGATTCAAATTAGGCTCGGGTTCTGCTTCGACTTTCATTCCCCGCTCTCTTCTACTCCATTTGATTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGATAGAGCGTGTGAAGTGTATGTGTGTGAGAGATCGGTACCTGAAGCCTGCAGGTTGATGTTACAGATTAGGGTTTTCAGTGTTCAAGATCATGGAAGGTGGCTTCGTCCTTGACGATAAGCCTAAAGTAGAGAAAACAGCAATGGATTCT...

CDS

Download CDS FASTA

855 bp · TkA04G214210|TK1151|CDS

ATGGAAGGTGGCTTCGTCCTTGACGATAAGCCTAAAGTAGAGAAAACAGCAATGGATTCTACTGGACCTTCAGGGAGGAAAATGCTTGCTGACATCAGCAACATGCAACGGAAAAACAATACTATAATCCAAGATAAAAAGTCTTTGCCAAATTCAGCTTCCCAGAAAGATTATATAGAACAGCTCCAAAAGGAAAATACAGCTCTTAAGAAGCTCTTAGCAGATAAAAGTAAAATCATTGATCTCAGTGGAAACGAATT...

Protein

Download Protein FASTA

284 aa · TkA04G214210|TK1151|PROTEIN

MEGGFVLDDKPKVEKTAMDSTGPSGRKMLADISNMQRKNNTIIQDKKSLPNSASQKDYIEQLQKENTALKKLLADKSKIIDLSGNELHKLRVNLQKMQQQNLQLAKSNSQILAELNSGKDRLKDLQHQLGCKNGIIIARQLELEGKRKTKTCQTNDIKKVKVSENEEKGVCIDNTSRRQKSKSLGPSVGNGVGDNRSIKGRRQSARSKRDVDLPACPLREEDRMKEDNDTIFVVKKEDVEIEGDESIIPEGSRRSSISRP...

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	`TkA04G214210`
TK1151 ID	TkA04G214210
OH-1004 ID	LXL04_034793
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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 TkA04G214210

Location Chr04:54827730-54830195 (+)

Description Similar to SGO2: SHUGOSHIN 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g10440`	Protects sister chromatid centromere cohesion in meiosis I but not through the protection of the cohesin SYN1.	SGO1 but not SGO2 is required for maintenance of centromere cohesion in Arabidopsis thaliana meiosis.2013 · DOI: 10.1007/s00497-013-0231-x Centromeric cohesion is protected twice at meiosis, by SHUGOSHINs at anaphase I and by PATRONUS at interkinesis.2013 · DOI: 10.1016/j.cub.2013.08.036 SHUGOSHINs and PATRONUS protect meiotic centromere cohesion in Arabidopsis thaliana.2014 · DOI: 10.1111/tpj.12432
`At5g04320`	Dispensable for both meiotic and mitotic cell cycle progression.	SGO1 but not SGO2 is required for maintenance of centromere cohesion in Arabidopsis thaliana meiosis.2013 · DOI: 10.1007/s00497-013-0231-x Centromeric cohesion is protected twice at meiosis, by SHUGOSHINs at anaphase I and by PATRONUS at interkinesis.2013 · DOI: 10.1016/j.cub.2013.08.036 SHUGOSHINs and PATRONUS protect meiotic centromere cohesion in Arabidopsis thaliana.2014 · DOI: 10.1111/tpj.12432

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0799100`	Plays a central role in chromosome cohesion during meiosis I by preventing premature dissociation of cohesin complex from centromeres after prophase, when most of cohesin complex dissociates from chromosomes arms.	OsSGO1 maintains synaptonemal complex stabilization in addition to protecting centromeric cohesion during rice meiosis.2011 · DOI: 10.1111/j.1365-313x.2011.04615.x

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_034793 · 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:0034090 maintenance of meiotic sister chromatid cohesion Biological Process

GO:0045144 meiotic sister chromatid segregation Biological Process

GO:0051301 cell division Biological Process

GO:0000775 chromosome, centromeric region Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005730 nucleolus Cellular Component

KEGG gene cross-reference

ath:AT3G10440

ath:AT5G04320

dosa:Os02g0799100

zma:606461

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.

Nucleus0.965

Rank 1 · TkA04G214210 · TK1151

Cytoplasm0.115

Rank 2 · TkA04G214210 · TK1151

Cell membrane0.020

Rank 3 · TkA04G214210 · TK1151

Mitochondrion0.009

Rank 4 · TkA04G214210 · TK1151

Endoplasmic reticulum0.009

Rank 5 · TkA04G214210 · 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.

PF15390WDCP20-129 aa

PF25443ANG-131-113 aa

PF06785UPF024231-116 aa

PF17182OSK35-125 aa

PF26095CC_Bre151-129 aa

PF07989Cnn_1N55-70 aa

PF07989Cnn_1N55-128 aa

PF20882Sos755-81 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA04G214210	`PF15390`	WDCP	20	129	0.47	9.4
TkA04G214210	`PF25443`	ANG-1	31	113	0.5	11.3
TkA04G214210	`PF06785`	UPF0242	31	116	1.4	9.6
TkA04G214210	`PF17182`	OSK	35	125	0.05	13.6
TkA04G214210	`PF26095`	CC_Bre1	51	129	0.45	11.5
TkA04G214210	`PF07989`	Cnn_1N	55	70	2.6	9.0
TkA04G214210	`PF07989`	Cnn_1N	55	128	2.6	9.0
TkA04G214210	`PF20882`	Sos7	55	81	2.9	8.8
TkA04G214210	`PF20882`	Sos7	98	130	2.9	8.8
TkA04G214210	`PF25443`	ANG-1	127	150	0.5	11.3
TkA04G214210	`PF07557`	Shugoshin_C	176	183	6e-11	42.6
TkA04G214210	`PF07557`	Shugoshin_C	258	282	6e-11	42.6

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
`F4J3S1`	Arabidopsis thaliana	sp\|F4J3S1\|SGO1_ARATH SHUGOSHIN 1	42.000%	Swiss-Prot	Medium
`Q0WTB8`	Arabidopsis thaliana	sp\|Q0WTB8\|SGO2_ARATH SHUGOSHIN 2	55.600%	Swiss-Prot	Low
`E3VXF2`	Oryza sativa subsp. japonica	sp\|E3VXF2\|SGO1_ORYSJ Shugoshin-1	42.700%	Swiss-Prot	Low

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