TkA04G396250 | RubberDandelionOmics

Gene overview

TkA04G396250

Reference: TK1151 Chr: Chr04 Coordinates: 99651999-99658067 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2437 bp · TkA04G396250|TK1151|cDNA

CAATCGACCACTTTCTGTAACCTTTCAACTTTGTGTTTTGTGCAATATCTTTGCTATAAAAGGCCATTTGTTATGGCTTTTATTTATTGCATGATGGCTATAAACACTCAAAACTCGGATTCTCTTCCTCTACAAGAAAAAATAGTCCACAAGAACACGACCTCCCGAGCCATAGAGCTCATGATTCTTTCGCTTCTCGTTTTCTTACTAATTTATCGAGTTGTTTCTTTCAAAGACCAAGATCACCACCTTGTGTGGTT...

CDS

Download CDS FASTA

2250 bp · TkA04G396250|TK1151|CDS

ATGGCTTTTATTTATTGCATGATGGCTATAAACACTCAAAACTCGGATTCTCTTCCTCTACAAGAAAAAATAGTCCACAAGAACACGACCTCCCGAGCCATAGAGCTCATGATTCTTTCGCTTCTCGTTTTCTTACTAATTTATCGAGTTGTTTCTTTCAAAGACCAAGATCACCACCTTGTGTGGTTAATAGCGTTGCTATGTGAGTCATGGTTTACGTTCAACTGGATTCTTATCGTGTCTACCAAATGGAATCAATG...

Protein

Download Protein FASTA

749 aa · TkA04G396250|TK1151|PROTEIN

MAFIYCMMAINTQNSDSLPLQEKIVHKNTTSRAIELMILSLLVFLLIYRVVSFKDQDHHLVWLIALLCESWFTFNWILIVSTKWNQCSTKTYPERLLNRVSESEFPAVDIFVTTADVILEPSIITMNTVLSLLAVDYPANKLALYLSDDGCSPITLYSLIEATKFAKLWVPFCKKYNIQTRAPFRYFTSNSTLVEDDSLEFQQEWKKMKNGYEDLYKKIELAANSPIPCDRNSDFADFCDVHRSDHPTIVQIISENKEGS...

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	`TkA04G396250`
TK1151 ID	TkA04G396250
OH-1004 ID	LXL04_026975
Relationship / confidence	Multi Candidate From Tk1151 / Complex relationship
Protein identity (%)	34.700
Protein coverage (%)	TK1151 87.316 / OH-1004 44.344 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 TkA04G396250

Location Chr04:99651999-99658067 (-)

Description Similar to CSLE6: Cellulose synthase-like protein E6

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g32540`	Thought to be a Golgi-localized beta-glycan synthase that polymerize the backbones of noncellulosic polysaccharides (hemicelluloses) of plant cell wall.	No verified direct reference in this release
`At2g32530`	Thought to be a Golgi-localized beta-glycan synthase that polymerize the backbones of noncellulosic polysaccharides (hemicelluloses) of plant cell wall.	No verified direct reference in this release
`At4g15320`	Thought to be a Golgi-localized beta-glycan synthase that polymerize the backbones of noncellulosic polysaccharides (hemicelluloses) of plant cell wall.	No verified direct reference in this release
`At4g15290`	Thought to be a Golgi-localized beta-glycan synthase that polymerize the backbones of noncellulosic polysaccharides (hemicelluloses) of plant cell wall.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os10g0341700`	Thought to be a Golgi-localized beta-glycan synthase that polymerize the backbones of noncellulosic polysaccharides (hemicelluloses) of plant cell wall.	No verified direct reference in this release
`UniProt: Q7PC71`	Thought to be a Golgi-localized beta-glycan synthase that polymerize the backbones of noncellulosic polysaccharides (hemicelluloses) of plant cell wall.	No verified direct reference in this release
`Os04g0429500`	Thought to be a Golgi-localized beta-glycan synthase that polymerize the backbones of noncellulosic polysaccharides (hemicelluloses) of plant cell wall.	No verified direct reference in this release
`Os04g0429600`	Thought to be a Golgi-localized beta-glycan synthase that polymerize the backbones of noncellulosic polysaccharides (hemicelluloses) of plant cell wall.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_026975 · 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:0009833 plant-type primary cell wall biogenesis Biological Process

GO:0030244 cellulose biosynthetic process Biological Process

GO:0071555 cell wall organization Biological Process

GO:0000139 Golgi membrane Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0016759 cellulose synthase activity Molecular Function

GO:0016760 cellulose synthase (UDP-forming) activity Molecular Function

KEGG gene cross-reference

dosa:Os02g0725300

dosa:Os09g0478100

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.

Cell membrane0.351

Rank 1 · TkA04G396250 · TK1151

Endoplasmic reticulum0.332

Rank 2 · TkA04G396250 · TK1151

Golgi apparatus0.225

Rank 3 · TkA04G396250 · TK1151

Cytoplasm0.157

Rank 4 · TkA04G396250 · TK1151

Lysosome / Vacuole0.111

Rank 5 · TkA04G396250 · 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.

PF13632Glyco_trans_2_359-72 aa

PF03552Cellulose_synt108-399 aa

PF13632Glyco_trans_2_3374-569 aa

PF03552Cellulose_synt397-718 aa

PF13632Glyco_trans_2_3597-632 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA04G396250	`PF13632`	Glyco_trans_2_3	59	72	7.7e-06	26.6
TkA04G396250	`PF03552`	Cellulose_synt	108	399	5.6e-130	435.8
TkA04G396250	`PF13632`	Glyco_trans_2_3	374	569	7.7e-06	26.6
TkA04G396250	`PF03552`	Cellulose_synt	397	718	5.6e-130	435.8
TkA04G396250	`PF13632`	Glyco_trans_2_3	597	632	7.7e-06	26.6

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
`O80891`	Arabidopsis thaliana	sp\|O80891\|CSLB4_ARATH Cellulose synthase-like protein B4	45.400%	Swiss-Prot	Medium
`Q8RX83`	Arabidopsis thaliana	sp\|Q8RX83\|CSLB3_ARATH Cellulose synthase-like protein B3	44.800%	Swiss-Prot	Medium
`O23386`	Arabidopsis thaliana	sp\|O23386\|CSLB6_ARATH Cellulose synthase-like protein B6	41.800%	Swiss-Prot	Medium
`Q0WT40`	Arabidopsis thaliana	sp\|Q0WT40\|CSLB5_ARATH Cellulose synthase-like protein B5	42.000%	Swiss-Prot	Medium
`Q339N5`	Oryza sativa subsp. japonica	sp\|Q339N5\|CSLH1_ORYSJ Cellulose synthase-like protein H1	45.800%	Swiss-Prot	Medium
`Q7PC71`	Oryza sativa subsp. indica	sp\|Q7PC71\|CSLH2_ORYSI Cellulose synthase-like protein H2	43.700%	Swiss-Prot	Medium
`Q7XUT9`	Oryza sativa subsp. japonica	sp\|Q7XUT9\|CSLH2_ORYSJ Cellulose synthase-like protein H2	43.700%	Swiss-Prot	Medium
`Q7XUU0`	Oryza sativa subsp. japonica	sp\|Q7XUU0\|CSLH3_ORYSJ Putative cellulose synthase-like protein H3	46.100%	Swiss-Prot	Medium

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