LXL04_024587 | RubberDandelionOmics

Gene overview

LXL04_024587

Reference: OH-1004 Chr: Chr05 Coordinates: 94462398-94463934 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1101 bp · LXL04_024587|LXL04_024587|OH1004|cDNA

ATGACACGACTACCCTTAGCGAGAGGCAAGCGACATCCATTTATTCCTCCCACCTCAGCCCTCCGCTACGGCTGTTTATCCATCGATTCCTCCCACCTCAGTCCTCCGCCACCACCTGCGCTCCACCGTCTGCACTCGACGACCACGACCACGTCTGTTTCTCCATCGATTCCTCCACATCGCATCGCATCACCGTTTCCGACCACGACTGTTTGCACTAAGGAGAAGACTGAAGTTATAGAGTTGCCCCATTGTCTAGT...

CDS

Download CDS FASTA

1101 bp · LXL04_024587|LXL04_024587|OH1004|CDS

ATGACACGACTACCCTTAGCGAGAGGCAAGCGACATCCATTTATTCCTCCCACCTCAGCCCTCCGCTACGGCTGTTTATCCATCGATTCCTCCCACCTCAGTCCTCCGCCACCACCTGCGCTCCACCGTCTGCACTCGACGACCACGACCACGTCTGTTTCTCCATCGATTCCTCCACATCGCATCGCATCACCGTTTCCGACCACGACTGTTTGCACTAAGGAGAAGACTGAAGTTATAGAGTTGCCCCATTGTCTAGT...

Protein

Download Protein FASTA

366 aa · LXL04_024587|LXL04_024587|OH1004|PROTEIN

MTRLPLARGKRHPFIPPTSALRYGCLSIDSSHLSPPPPPALHRLHSTTTTTSVSPSIPPHRIASPFPTTTVCTKEKTEVIELPHCLVSCASLELLRFSGLSNCRLIFPKVMGFPALRVLQLTYVELLEDDDSIKRILESCQLLEDLSFEDCVLCKLDRLCISCPKFKRLSIINWEDVGCHGIEISCPILVDLDLTGHIACKFFFQPVDSLKKAVIEPKFVGNTTSVLYPGICRVEYLSIDLYSFSKIWNLGSPDPNFTLD...

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_024587`
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_024587

Location Chr05:94462398-94463934 (+)

Description Similar to At1g79990: Coatomer subunit beta'-1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g79990`	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
`At1g52360`	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
`At3g15980`	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
`Os06g0143900`	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
`Os02g0209100`	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

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Functional annotation source: OH1004 · LXL04_024587 · 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:0006890 retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum Biological Process

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

GO:0000139 Golgi membrane Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005829 cytosol Cellular Component

GO:0030126 COPI vesicle coat Cellular Component

GO:0005198 structural molecule activity Molecular Function

KEGG gene cross-reference

ath:AT1G52360

ath:AT1G79990

ath:AT3G15980

dosa:Os02g0209100

dosa:Os06g0143900

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.

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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.

Nucleus0.783

Rank 1 · LXL04_024587 · OH-1004

Cytoplasm0.206

Rank 2 · LXL04_024587 · OH-1004

Cell membrane0.067

Rank 3 · LXL04_024587 · OH-1004

Endoplasmic reticulum0.056

Rank 4 · LXL04_024587 · OH-1004

Plastid0.024

Rank 5 · LXL04_024587 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF24758.2LRR_At5g5637079-177 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_024587	`PF24758.2`	LRR_At5g56370	79	177	1.3e-08	35.5

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
`Q9CAA0`	Arabidopsis thaliana	Coatomer subunit beta'-1	75.758%	Swiss-Prot	weak database homology
`Q9C827`	Arabidopsis thaliana	Coatomer subunit beta'-2	74.242%	Swiss-Prot	weak database homology
`Q8L828`	Arabidopsis thaliana	Coatomer subunit beta'-3	74.242%	Swiss-Prot	weak database homology
`Q5VQ78`	Oryza sativa subsp. japonica	Coatomer subunit beta'-1	61.842%	Swiss-Prot	weak database homology
`Q6H8D5`	Oryza sativa subsp. japonica	Coatomer subunit beta'-2	84.783%	Swiss-Prot	weak database homology

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