LXL04_015109 | RubberDandelionOmics

Gene overview

LXL04_015109

Reference: OH-1004 Chr: Chr03 Coordinates: 63770370-63771496 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1056 bp · LXL04_015109|LXL04_015109|OH1004|cDNA

ATGTCCGACGAAATTCCTTTCCATCTCCAAGAGCAAATCATCAAAAGGCTTCCTGTCATATCATTGCTACAGTTCAGATCCGTCTCGAAAGCATGGAAGTCTGTTATCGACAACTCCAACTTCATCGCTGCTCACTCTGCTCACAGCGTTACTCAGCCGCAGCATTTGTTTTTAAAGTTTGTTCATATCCTTCCCCAGTCCGTTAAATTACTTAAACGATCTAGTATAATCGGCTCTCTTGGATTGTTGTGTTTTCACGG...

CDS

Download CDS FASTA

1056 bp · LXL04_015109|LXL04_015109|OH1004|CDS

ATGTCCGACGAAATTCCTTTCCATCTCCAAGAGCAAATCATCAAAAGGCTTCCTGTCATATCATTGCTACAGTTCAGATCCGTCTCGAAAGCATGGAAGTCTGTTATCGACAACTCCAACTTCATCGCTGCTCACTCTGCTCACAGCGTTACTCAGCCGCAGCATTTGTTTTTAAAGTTTGTTCATATCCTTCCCCAGTCCGTTAAATTACTTAAACGATCTAGTATAATCGGCTCTCTTGGATTGTTGTGTTTTCACGG...

Protein

Download Protein FASTA

351 aa · LXL04_015109|LXL04_015109|OH1004|PROTEIN

MSDEIPFHLQEQIIKRLPVISLLQFRSVSKAWKSVIDNSNFIAAHSAHSVTQPQHLFLKFVHILPQSVKLLKRSSIIGSLGLLCFHGYTGEQDLETEMVVLWNPTIRKSIDVDVPNNPNPDCETEHGFGVCPVTADPKIIAITQFHNTKTNYHCEAIVYALSSGKWRSVSNNLPSKPFRVFWPHVVVERFIYWCAFDPMTMASGLPNHNQIMSFDTTDENFGVIDLPDSLRCRSPTLLCISKLRESLILLEYTDFFMGSC...

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_015109`
TK1151 ID	TkA02G367620
OH-1004 ID	LXL04_015109
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	94.600
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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_015109

Location Chr03:63770370-63771496 (+)

Description Similar to At2g21930: F-box protein At2g21930

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g21930`	F-box protein At2g21930.	No verified direct reference in this release
`At4g12560`	Component of SCF(ASK-cullin-F-box) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins (By similarity).	An F-box gene, CPR30, functions as a negative regulator of the defense response in Arabidopsis.2009 · DOI: 10.1111/j.1365-313x.2009.03995.x
`At1g50870`	Putative F-box protein At1g50870.	No verified direct reference in this release
`At1g47790`	Putative F-box protein At1g47790.	No verified direct reference in this release
`At2g27520`	F-box/LRR-repeat/kelch-repeat protein At2g27520.	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_015109 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009626 plant-type hypersensitive response Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0031348 negative regulation of defense response Biological Process

GO:0042177 negative regulation of protein catabolic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0009507 chloroplast Cellular Component

KEGG gene cross-reference

ath:AT1G47790

ath:AT1G50870

ath:AT2G21930

ath:AT2G27520

ath:AT4G12560

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.

Cytoplasm0.686

Rank 1 · LXL04_015109 · OH-1004

Nucleus0.365

Rank 2 · LXL04_015109 · OH-1004

Cell membrane0.107

Rank 3 · LXL04_015109 · OH-1004

Endoplasmic reticulum0.074

Rank 4 · LXL04_015109 · OH-1004

Lysosome / Vacuole0.041

Rank 5 · LXL04_015109 · 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.

PF00646.39F-box4-41 aa

PF08268.18FBA_356-331 aa

PF07734.19FBA_181-280 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_015109	`PF00646.39`	F-box	4	41	2.2e-10	40.7
LXL04_015109	`PF08268.18`	FBA_3	56	331	2.1e-11	44.1
LXL04_015109	`PF07734.19`	FBA_1	81	280	4.7e-13	49.5

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9SJ06`	Arabidopsis thaliana	F-box protein At2g21930	27.888%	Swiss-Prot	weak database homology
`Q9SU30`	Arabidopsis thaliana	F-box protein CPR1	23.360%	Swiss-Prot	weak database homology
`Q9C6J3`	Arabidopsis thaliana	Putative F-box protein At1g50870	24.722%	Swiss-Prot	weak database homology
`Q9FZF8`	Arabidopsis thaliana	Putative F-box protein At1g47790	24.088%	Swiss-Prot	weak database homology
`Q9ZNQ3`	Arabidopsis thaliana	F-box/LRR-repeat/kelch-repeat protein At2g27520	25.430%	Swiss-Prot	weak database homology

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