TkA06G473220 | RubberDandelionOmics

Gene overview

TkA06G473220

Reference: TK1151 Chr: Chr06 Coordinates: 117045418-117046994 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1106 bp · TkA06G473220|TK1151|cDNA

TAAGCATTGTTCTTGAAGTTCGTACACGTATATAGACACTCACACATCTACCTGTTGCCAATTTGGGCAAATTCATCTTCAATAGCTATATTTACTGTGTGTAGTTACTGTGTGCAACATTTGCAGCTACTGAACAATCAATCGATCAACAGTTAGGGTTTTCGAATTTAAGGTTTTGAGTGATATGGCGGAGTACGGCGACGAAATCGAGCAGAAAGGCGAGTCGTTTATGGATAAGATTACAGAGAAGATTCATCGAG...

CDS

Download CDS FASTA

804 bp · TkA06G473220|TK1151|CDS

ATGGCGGAGTACGGCGACGAAATCGAGCAGAAAGGCGAGTCGTTTATGGATAAGATTACAGAGAAGATTCATCGAGACGATTCTTCGTCTGATTCTGATTCTGAGAAGAAGAAGAGGCATGATGATGAGTTGAAGAAGAAGCATCATGATGTTCCGTCACCTACTTCTTCGATGAAATCGAAGATCTACCGGTTGTTTGGTAGGGAGAAACCAGTTCACAAGGTGTTTGGCGGTGGAAAACCTGCTGATGTATTCTTATG...

Protein

Download Protein FASTA

267 aa · TkA06G473220|TK1151|PROTEIN

MAEYGDEIEQKGESFMDKITEKIHRDDSSSDSDSEKKKRHDDELKKKHHDVPSPTSSMKSKIYRLFGREKPVHKVFGGGKPADVFLWRNKKISASVLGGATAVWVFFELLEYHLLTLVCHVLILAFAVLFLWSNASKFINKSPPRIPEVRIPEDKFLQIAAGLRNELNQGLDTVRNIASGRDLKKFLAVIAGLWFLSIVGSWCNFLTLFYIIFVLLHTIPVVYEKYEDQIDAFAEKAMIEIKKQYKVFDAKVVSRIPRGP...

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	`TkA06G473220`
TK1151 ID	TkA06G473220
OH-1004 ID	LXL04_022614
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA06G473220

Location Chr06:117045418-117046994 (-)

Description Similar to RTNLB5: Reticulon-like protein B5

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g23630`	Plays a role in the Agrobacterium-mediated plant transformation via its interaction with VirB2, the major component of the T-pilus.	Plant proteins that interact with VirB2, the Agrobacterium tumefaciens pilin protein, mediate plant transformation.2004 · DOI: 10.1105/tpc.104.026476
`At4g11220`	Plays a role in the Agrobacterium-mediated plant transformation via its interaction with VirB2, the major component of the T-pilus.	Plant proteins that interact with VirB2, the Agrobacterium tumefaciens pilin protein, mediate plant transformation.2004 · DOI: 10.1105/tpc.104.026476
`At2g46170`	Reticulon-like protein B5.	No verified direct reference in this release
`At3g61560`	Reticulon-like protein B6.	No verified direct reference in this release
`At5g41600`	Plays a role in the Agrobacterium-mediated plant transformation via its interaction with VirB2, the major component of the T-pilus.	Plant proteins that interact with VirB2, the Agrobacterium tumefaciens pilin protein, mediate plant transformation.2004 · DOI: 10.1105/tpc.104.026476

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_022614 · 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:0009617 response to bacterium Biological Process

GO:0050687 negative regulation of defense response to virus Biological Process

GO:0071786 endoplasmic reticulum tubular network organization Biological Process

GO:0000325 plant-type vacuole Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005774 vacuolar membrane Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005789 endoplasmic reticulum membrane Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0071782 endoplasmic reticulum tubular network Cellular Component

KEGG gene cross-reference

ath:AT1G64090

ath:AT2G46170

ath:AT3G61560

ath:AT4G11220

ath:AT4G23630

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.

Endoplasmic reticulum0.448

Rank 1 · TkA06G473220 · TK1151

Cell membrane0.357

Rank 2 · TkA06G473220 · TK1151

Cytoplasm0.168

Rank 3 · TkA06G473220 · TK1151

Golgi apparatus0.107

Rank 4 · TkA06G473220 · TK1151

Lysosome / Vacuole0.102

Rank 5 · TkA06G473220 · 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.

PF19174DUF585615-31 aa

PF02453Reticulon82-237 aa

PF24456RHD_RETREG1-383-129 aa

PF132392TM116-116 aa

PF132392TM183-233 aa

PF24456RHD_RETREG1-3184-223 aa

PF19174DUF5856222-249 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA06G473220	`PF19174`	DUF5856	15	31	0.1	14.4
TkA06G473220	`PF02453`	Reticulon	82	237	3.5e-62	209.7
TkA06G473220	`PF24456`	RHD_RETREG1-3	83	129	0.0016	18.7
TkA06G473220	`PF13239`	2TM	116	116	0.065	14.0
TkA06G473220	`PF13239`	2TM	183	233	0.065	14.0
TkA06G473220	`PF24456`	RHD_RETREG1-3	184	223	0.0016	18.7
TkA06G473220	`PF19174`	DUF5856	222	249	0.1	14.4

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
`Q9SUR3`	Arabidopsis thaliana	sp\|Q9SUR3\|RTNLA_ARATH Reticulon-like protein B1	70.100%	Swiss-Prot	High
`Q9SUT9`	Arabidopsis thaliana	sp\|Q9SUT9\|RTNLB_ARATH Reticulon-like protein B2	67.300%	Swiss-Prot	High
`O82352`	Arabidopsis thaliana	sp\|O82352\|RTNLE_ARATH Reticulon-like protein B5	59.500%	Swiss-Prot	High
`Q6DBN4`	Arabidopsis thaliana	sp\|Q6DBN4\|RTNLF_ARATH Reticulon-like protein B6	60.200%	Swiss-Prot	High
`Q9FFS0`	Arabidopsis thaliana	sp\|Q9FFS0\|RTNLD_ARATH Reticulon-like protein B4	67.800%	Swiss-Prot	High

JBrowse

View in Genome Browser

Gene Card