LXL04_006319 | RubberDandelionOmics

Gene overview

LXL04_006319

Reference: OH-1004 Chr: Chr02 Coordinates: 6796704-6798670 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

648 bp · LXL04_006319|LXL04_006319|OH1004|cDNA

ATGTGGAGATCGACAACTATACTAACGACCGTTGTCGTAATATTAGGGCTTGTTTCATCACCTGTGGTGAAGGGAATGAGGTTCGAGATCAAAACCGGAGCCACAAAATGCATAACGGAAGATATTCCGTCGAATTCGCTGACTGTCGGAAAATACAGCATCGTCGATCCGAAAGAAGATCATCCGTTGCCTGATAGCCATCGTATCACCGTCAGAATAACCTCACCACTTGGGAATAACTGTCACTATGCGGATCAAAA...

CDS

Download CDS FASTA

648 bp · LXL04_006319|LXL04_006319|OH1004|CDS

ATGTGGAGATCGACAACTATACTAACGACCGTTGTCGTAATATTAGGGCTTGTTTCATCACCTGTGGTGAAGGGAATGAGGTTCGAGATCAAAACCGGAGCCACAAAATGCATAACGGAAGATATTCCGTCGAATTCGCTGACTGTCGGAAAATACAGCATCGTCGATCCGAAAGAAGATCATCCGTTGCCTGATAGCCATCGTATCACCGTCAGAATAACCTCACCACTTGGGAATAACTGTCACTATGCGGATCAAAA...

Protein

Download Protein FASTA

215 aa · LXL04_006319|LXL04_006319|OH1004|PROTEIN

MWRSTTILTTVVVILGLVSSPVVKGMRFEIKTGATKCITEDIPSNSLTVGKYSIVDPKEDHPLPDSHRITVRITSPLGNNCHYADQKDHGEFAYTAHEDGDYMACFWVAKQNPQTTLTIEFDWRYGLAAKDWSNVAKRGQLEMMELDLKKLFDTIAIIHDEMFYLREREESMQLLIRSTNSKMATFSFFSLIVCLAVACMQLWHLKTFFERKKLI

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_006319`
TK1151 ID	TkA03G026590
OH-1004 ID	LXL04_006319
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
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	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_006319

Location Chr02:6796704-6798670 (+)

Description Similar to At1g26690: Transmembrane emp24 domain-containing protein p24delta9

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g26690`	Involved in vesicular protein trafficking.	No verified direct reference in this release
`At1g14010`	Involved in vesicular protein trafficking.	No verified direct reference in this release
`At2g03290`	Involved in vesicular protein trafficking.	No verified direct reference in this release
`At1g69460`	Involved in vesicular protein trafficking.	No verified direct reference in this release
`At3g29070`	Involved in vesicular protein trafficking.	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_006319 · 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:0007030 Golgi organization Biological Process

GO:0005576 extracellular region Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005789 endoplasmic reticulum membrane Cellular Component

GO:0005793 endoplasmic reticulum-Golgi intermediate compartment Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0030134 COPII-coated ER to Golgi transport vesicle Cellular Component

GO:0032580 Golgi cisterna membrane Cellular Component

KEGG gene cross-reference

ath:AT1G14010

ath:AT1G26690

ath:AT1G69460

ath:AT2G03290

ath:AT3G29070

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.

Endoplasmic reticulum0.625

Rank 1 · LXL04_006319 · OH-1004

Golgi apparatus0.474

Rank 2 · LXL04_006319 · OH-1004

Cytoplasm0.097

Rank 3 · LXL04_006319 · OH-1004

Cell membrane0.053

Rank 4 · LXL04_006319 · OH-1004

Nucleus0.045

Rank 5 · LXL04_006319 · 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.

PF01105.30EMP24_GP25L26-210 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_006319	`PF01105.30`	EMP24_GP25L	26	210	2e-47	162.3

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
`Q9LQY3`	Arabidopsis thaliana	Transmembrane emp24 domain-containing protein p24delta9	56.731%	Swiss-Prot	strong database homology
`Q8GYG1`	Arabidopsis thaliana	Transmembrane emp24 domain-containing protein p24delta7	55.556%	Swiss-Prot	strong database homology
`O81045`	Arabidopsis thaliana	Transmembrane emp24 domain-containing protein p24delta8	57.143%	Swiss-Prot	strong database homology
`Q8VY92`	Arabidopsis thaliana	Transmembrane emp24 domain-containing protein p24delta10	51.628%	Swiss-Prot	strong database homology
`Q9LJV9`	Arabidopsis thaliana	Transmembrane emp24 domain-containing protein p24delta11	48.958%	Swiss-Prot	moderate database homology

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