LXL04_001698 | RubberDandelionOmics

Gene overview

LXL04_001698

Reference: OH-1004 Chr: Chr01 Coordinates: 31507739-31514919 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2691 bp · LXL04_001698|LXL04_001698|OH1004|cDNA

ATGGCGCAGTACGTGAAGAAAGACGATGATCGCGATGAGGAAGCAGAATACTCCCCCTTTTCTGGAATTGAGAAAGGAGCAGTTCTTCAGGAAGCTAGGGTCTTCAATGATCCTCAGTTAGATTCAAGGAGGTGCTCTCAGGTTGAAGCCACAGAGGTTTTCTTTTCAGTGACAAAACTTTTCCAGTCTAAAGACATTGGATTAAGAAGAATGGTTATTATTGTCACAAGTTCCCTCATGAAAGACATGAACAGCAAGAC...

CDS

Download CDS FASTA

2691 bp · LXL04_001698|LXL04_001698|OH1004|CDS

ATGGCGCAGTACGTGAAGAAAGACGATGATCGCGATGAGGAAGCAGAATACTCCCCCTTTTCTGGAATTGAGAAAGGAGCAGTTCTTCAGGAAGCTAGGGTCTTCAATGATCCTCAGTTAGATTCAAGGAGGTGCTCTCAGGTTGAAGCCACAGAGGTTTTCTTTTCAGTGACAAAACTTTTCCAGTCTAAAGACATTGGATTAAGAAGAATGGTTATTATTGTCACAAGTTCCCTCATGAAAGACATGAACAGCAAGAC...

Protein

Download Protein FASTA

896 aa · LXL04_001698|LXL04_001698|OH1004|PROTEIN

MAQYVKKDDDRDEEAEYSPFSGIEKGAVLQEARVFNDPQLDSRRCSQVEATEVFFSVTKLFQSKDIGLRRMVIIVTSSLMKDMNSKTDVYRANAIRVLCRITDGTLLTQIERYLKQAIVDKNPVVASAALVSGIHLLQTNPEIVKRWSNEVQEAVQSRAALVQFHALGLLHQIRQNDRLAVSKLVTSLTKGTVRSPLAQCLLIRYTSQVIREASMNNQTGDRPFYDYLESCLRHKSEMVIFEAARAITELSNVTSRELTP...

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	`LXL04_001698`
TK1151 ID	TkA01G518320
OH-1004 ID	LXL04_001698
Relationship / confidence	Multi Candidate From Tk1151 / Complex relationship
Protein identity (%)	95.900
Protein coverage (%)	TK1151 99.094 / OH-1004 94.308 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	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_001698

Location Chr01:31507739-31514919 (+)

Description Similar to At4g34450: Coatomer subunit gamma

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g34450`	The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os07g0201100`	The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network.	No verified direct reference in this release
`Os03g0227000`	The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_001698 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006886 intracellular protein transport Biological Process

GO:0006888 endoplasmic reticulum to Golgi vesicle-mediated transport Biological Process

GO:0006891 intra-Golgi vesicle-mediated transport Biological Process

GO:0009306 protein secretion Biological Process

GO:0072384 organelle transport along microtubule Biological Process

GO:0000139 Golgi membrane Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005793 endoplasmic reticulum-Golgi intermediate compartment Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009506 plasmodesma Cellular Component

KEGG gene cross-reference

ath:AT4G34450

bta:536616

dosa:Os03g0227000

dosa:Os07g0201100

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.

Cytoplasm0.548

Rank 1 · LXL04_001698 · OH-1004

Golgi apparatus0.287

Rank 2 · LXL04_001698 · OH-1004

Nucleus0.231

Rank 3 · LXL04_001698 · OH-1004

Endoplasmic reticulum0.125

Rank 4 · LXL04_001698 · OH-1004

Lysosome / Vacuole0.104

Rank 5 · LXL04_001698 · OH-1004

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.

PF01602.27Adaptin_N52-508 aa

PF12717.14Cnd191-187 aa

PF08752.17COP-gamma_platf589-734 aa

PF16381.11Coatomer_g_Cpla737-846 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_001698	`PF01602.27`	Adaptin_N	52	508	3.1e-122	409.6
LXL04_001698	`PF12717.14`	Cnd1	91	187	1.2e-13	52.1
LXL04_001698	`PF08752.17`	COP-gamma_platf	589	734	1.6e-52	178.4
LXL04_001698	`PF16381.11`	Coatomer_g_Cpla	737	846	6.2e-37	127.0

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
`Q0WW26`	Arabidopsis thaliana	Coatomer subunit gamma	79.256%	Swiss-Prot	strong database homology
`Q6Z382`	Oryza sativa subsp. japonica	Coatomer subunit gamma-2	80.227%	Swiss-Prot	strong database homology
`Q8H852`	Oryza sativa subsp. japonica	Coatomer subunit gamma-1	76.949%	Swiss-Prot	strong database homology

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