LXL04_022021 | RubberDandelionOmics

Gene overview

LXL04_022021

Reference: OH-1004 Chr: Chr04 Coordinates: 142482974-142484378 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

930 bp · LXL04_022021|LXL04_022021|OH1004|cDNA

ATGTCAAGGTTTAGTAACACTGTAATCGGTCTTCTGAACTTATTCACACTCTTAGCATCAATACCCATAATCGGCGGCGCCTTATGGATAGAAAGAAGCAGCGCCACCTGCAACACCTTCCTCCAAACACCGCTTCTAGTCATCGGATTTGTAATCTTGATCGTATCTCTGACAGGTTTCATCGGTGCATGTTTCAACCTCGCGTGGGCCCTGTGGGTCTACCTGGTGGCGATGCTGTTCTTGATTGCAGCGTTAATGGC...

CDS

Download CDS FASTA

930 bp · LXL04_022021|LXL04_022021|OH1004|CDS

ATGTCAAGGTTTAGTAACACTGTAATCGGTCTTCTGAACTTATTCACACTCTTAGCATCAATACCCATAATCGGCGGCGCCTTATGGATAGAAAGAAGCAGCGCCACCTGCAACACCTTCCTCCAAACACCGCTTCTAGTCATCGGATTTGTAATCTTGATCGTATCTCTGACAGGTTTCATCGGTGCATGTTTCAACCTCGCGTGGGCCCTGTGGGTCTACCTGGTGGCGATGCTGTTCTTGATTGCAGCGTTAATGGC...

Protein

Download Protein FASTA

309 aa · LXL04_022021|LXL04_022021|OH1004|PROTEIN

MSRFSNTVIGLLNLFTLLASIPIIGGALWIERSSATCNTFLQTPLLVIGFVILIVSLTGFIGACFNLAWALWVYLVAMLFLIAALMAFTIFGFIVTGAGGGMNVSGRAYNEYHLEDYSPWLRKRVEDPKYWVTVRSCILGSKTCRDIVMWSPVDYLTKDMSPIQSGCCKPPSECSYEETMMAQDLDCYKWSNDPSTLCYECDSCKAGVLEDVRRDWRKLSVLNVIMTLLLIGIYCIGCCAFRNTRRAESDYPYGENQMSK...

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_022021`
TK1151 ID	TkA05G439260
OH-1004 ID	LXL04_022021
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	99.500
Protein coverage (%)	TK1151 79.051 / OH-1004 64.725 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_022021

Location Chr04:142482974-142484378 (+)

Description Similar to TET6: Tetraspanin-6

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g12090`	May be involved in the regulation of cell differentiation.	No verified direct reference in this release
`At4g23410`	May be involved in the regulation of cell differentiation.	No verified direct reference in this release
`At3g45600`	May be involved in the regulation of cell differentiation.	No verified direct reference in this release
`At4g30430`	May be involved in the regulation of cell differentiation.	No verified direct reference in this release
`At2g23810`	May be involved in the regulation of cell differentiation.	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_022021 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006890 retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum Biological Process

GO:0009734 auxin-activated signaling pathway Biological Process

GO:0035265 organ growth Biological Process

GO:0050829 defense response to Gram-negative bacterium Biological Process

GO:0090110 COPII-coated vesicle cargo loading Biological Process

GO:0099039 sphingolipid translocation Biological Process

GO:0005576 extracellular region Cellular Component

GO:0005773 vacuole Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009506 plasmodesma Cellular Component

KEGG gene cross-reference

ath:AT2G23810

ath:AT3G12090

ath:AT3G45600

ath:AT4G23410

ath:AT4G30430

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.

Cell membrane0.626

Rank 1 · LXL04_022021 · OH-1004

Lysosome / Vacuole0.179

Rank 2 · LXL04_022021 · OH-1004

Cytoplasm0.129

Rank 3 · LXL04_022021 · OH-1004

Endoplasmic reticulum0.101

Rank 4 · LXL04_022021 · OH-1004

Golgi apparatus0.064

Rank 5 · LXL04_022021 · 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.

PF00335.27Tetraspanin6-240 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_022021	`PF00335.27`	Tetraspanin	6	240	1.9e-33	116.7

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
`Q9C7C1`	Arabidopsis thaliana	Tetraspanin-6	63.636%	Swiss-Prot	strong database homology
`Q84WF6`	Arabidopsis thaliana	Tetraspanin-5	56.458%	Swiss-Prot	strong database homology
`Q9M1E7`	Arabidopsis thaliana	Tetraspanin-3	45.161%	Swiss-Prot	moderate database homology
`Q9M0B7`	Arabidopsis thaliana	Tetraspanin-9	36.531%	Swiss-Prot	moderate database homology
`Q8S8Q6`	Arabidopsis thaliana	Tetraspanin-8	40.152%	Swiss-Prot	moderate database homology

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