TkA05G004080 | RubberDandelionOmics

Gene overview

TkA05G004080

Reference: TK1151 Chr: Chr05 Coordinates: 1227605-1229728 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1920 bp · TkA05G004080|TK1151|cDNA

ATGGGCATCGGTTTCACCACCTTGCTTTTTTTGGCCTTCGTTTCGATCCCTACAGCCACATCGCAATCTCCCACCTGTAATGGAATCTCTATATCCTACGTCTACAACTCCGGCTTCCAAATTCCACCGACGGCCACCAACACCGCCGATCAGCCGTACACATTCCAGTCTTCTCTCACTCTCACCAACGCCGGCGTTGATCGGCTCAAATCATGGCGGGTCTTTGTGGGGTTCCAACACCGTGAGTTCTTAGTTTCATC...

CDS

Download CDS FASTA

1920 bp · TkA05G004080|TK1151|CDS

ATGGGCATCGGTTTCACCACCTTGCTTTTTTTGGCCTTCGTTTCGATCCCTACAGCCACATCGCAATCTCCCACCTGTAATGGAATCTCTATATCCTACGTCTACAACTCCGGCTTCCAAATTCCACCGACGGCCACCAACACCGCCGATCAGCCGTACACATTCCAGTCTTCTCTCACTCTCACCAACGCCGGCGTTGATCGGCTCAAATCATGGCGGGTCTTTGTGGGGTTCCAACACCGTGAGTTCTTAGTTTCATC...

Protein

Download Protein FASTA

639 aa · TkA05G004080|TK1151|PROTEIN

MGIGFTTLLFLAFVSIPTATSQSPTCNGISISYVYNSGFQIPPTATNTADQPYTFQSSLTLTNAGVDRLKSWRVFVGFQHREFLVSSSNAVLADGTSLPANVTNGAVFAGFPATDLKTAVETAGDWNQMQARIQLVGTQFGVAPPNVSLPANVYLVNDGYLCSAPSSPANNETHVCCVKDPNAIPTTTVEETFDARQEGDVVIEYDVISSKETEYMAQVTLSNHNPLSRLDYWQLSWDWMRDEFIYSMKGAYPSVIDTNP...

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	`TkA05G004080`
TK1151 ID	TkA05G004080
OH-1004 ID	LXL04_018918
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.800
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

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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 TkA05G004080

Location Chr05:1227605-1229728 (-)

Description Similar to COBL7: COBRA-like protein 7

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g16120`	COBRA-like protein 7.	No verified direct reference in this release
`At3g16860`	COBRA-like protein 8.	No verified direct reference in this release
`At5g49270`	COBRA-like protein 9.	No verified direct reference in this release
`At3g20580`	Involved in the deposition of apical pectin cap and cellulose microfibrils in pollen tubes.	Arabidopsis COBRA-LIKE 10, a GPI-anchored protein, mediates directional growth of pollen tubes.2013 · DOI: 10.1111/tpj.12139
`At4g27110`	Involved in the deposition of apical pectin cap and cellulose microfibrils in pollen tubes.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_018918 · 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:0009860 pollen tube growth Biological Process

GO:0009932 cell tip growth Biological Process

GO:0010053 root epidermal cell differentiation Biological Process

GO:0010183 pollen tube guidance Biological Process

GO:0010215 cellulose microfibril organization Biological Process

GO:0048765 root hair cell differentiation Biological Process

GO:0048768 root hair cell tip growth Biological Process

GO:0052324 plant-type cell wall cellulose biosynthetic process Biological Process

GO:0071555 cell wall organization Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0005768 endosome Cellular Component

GO:0005794 Golgi apparatus Cellular Component

KEGG gene cross-reference

ath:AT3G16860

ath:AT3G20580

ath:AT4G16120

ath:AT4G27110

ath:AT5G49270

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.

Cell membrane0.729

Rank 1 · TkA05G004080 · TK1151

Extracellular0.131

Rank 2 · TkA05G004080 · TK1151

Endoplasmic reticulum0.096

Rank 3 · TkA05G004080 · TK1151

Cytoplasm0.087

Rank 4 · TkA05G004080 · TK1151

Lysosome / Vacuole0.047

Rank 5 · TkA05G004080 · 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.

PF00553CBM_253-95 aa

PF25079COB_C54-124 aa

PF04833COBRA_N145-167 aa

PF25079COB_C183-236 aa

PF00553CBM_2203-245 aa

PF04833COBRA_N215-394 aa

PF25079COB_C402-611 aa

PF00553CBM_2408-435 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA05G004080	`PF00553`	CBM_2	53	95	4.7e-05	24.4
TkA05G004080	`PF25079`	COB_C	54	124	7.6e-94	314.3
TkA05G004080	`PF04833`	COBRA_N	145	167	1.1e-64	218.1
TkA05G004080	`PF25079`	COB_C	183	236	7.6e-94	314.3
TkA05G004080	`PF00553`	CBM_2	203	245	4.7e-05	24.4
TkA05G004080	`PF04833`	COBRA_N	215	394	1.1e-64	218.1
TkA05G004080	`PF25079`	COB_C	402	611	7.6e-94	314.3
TkA05G004080	`PF00553`	CBM_2	408	435	4.7e-05	24.4
TkA05G004080	`PF00553`	CBM_2	481	519	4.7e-05	24.4

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
`Q8GZ17`	Arabidopsis thaliana	sp\|Q8GZ17\|COBL7_ARATH COBRA-like protein 7	57.800%	Swiss-Prot	High
`Q9LIB6`	Arabidopsis thaliana	sp\|Q9LIB6\|COBL8_ARATH COBRA-like protein 8	56.800%	Swiss-Prot	High
`Q9FJ13`	Arabidopsis thaliana	sp\|Q9FJ13\|COBL9_ARATH COBRA-like protein 9	56.900%	Swiss-Prot	High
`Q9LJU0`	Arabidopsis thaliana	sp\|Q9LJU0\|CBL10_ARATH COBRA-like protein 10	49.100%	Swiss-Prot	Medium
`Q9T045`	Arabidopsis thaliana	sp\|Q9T045\|CBL11_ARATH COBRA-like protein 11	47.600%	Swiss-Prot	Medium

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