LXL04_001960 | RubberDandelionOmics

Gene overview

LXL04_001960

Reference: OH-1004 Chr: Chr01 Coordinates: 38053895-38054965 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1071 bp · LXL04_001960|LXL04_001960|OH1004|cDNA

ATGACGACGGAGCTGCCACCGGACATACTATTCTCCAACATACTACCAAGGCTGCCGCCCGAATCTCTTTCACGTTTCAAGTGTGTTTCAAAGCAATGGCACTCCTTCCTACGACCCCCCCGGTTTCTCCAAATGCACATACTCCATGCAAAAAACACTCAAAATGAGAAGTATATCTTCTTACCTAAAACAAGACCATGGGATTACCGGATCATCGACTGTGAAACACCCGAAGATGGTTTCACTGCCAGCCGCCCTTT...

CDS

Download CDS FASTA

1071 bp · LXL04_001960|LXL04_001960|OH1004|CDS

ATGACGACGGAGCTGCCACCGGACATACTATTCTCCAACATACTACCAAGGCTGCCGCCCGAATCTCTTTCACGTTTCAAGTGTGTTTCAAAGCAATGGCACTCCTTCCTACGACCCCCCCGGTTTCTCCAAATGCACATACTCCATGCAAAAAACACTCAAAATGAGAAGTATATCTTCTTACCTAAAACAAGACCATGGGATTACCGGATCATCGACTGTGAAACACCCGAAGATGGTTTCACTGCCAGCCGCCCTTT...

Protein

Download Protein FASTA

356 aa · LXL04_001960|LXL04_001960|OH1004|PROTEIN

MTTELPPDILFSNILPRLPPESLSRFKCVSKQWHSFLRPPRFLQMHILHAKNTQNEKYIFLPKTRPWDYRIIDCETPEDGFTASRPFPFKVGLNQHISILSSVNGLVCVGIANSLGLEEKISHIILWNPVTNDHKKLPKARSRRSYMTSFHKYELYYSFSENDYKLIWLSHRRNVRIFSLKSNKWTMIKSKTKLSSSDTVSHHIMSSVMSNEKFHFLRKFFVFEGGDEKVCLGNDEKRDFMGFLDLKGRAYLCVALINSK...

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_001960`
TK1151 ID	TkA01G494070
OH-1004 ID	LXL04_001960
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	98.800
Protein coverage (%)	TK1151 98.394 / OH-1004 68.820 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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_001960

Location Chr01:38053895-38054965 (+)

Description Similar to At1g47790: Putative F-box protein At1g47790

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g47790`	Putative F-box protein At1g47790.	No verified direct reference in this release
`At1g12870`	Putative F-box/kelch-repeat protein At1g12870.	No verified direct reference in this release
`At4g04690`	Putative F-box only protein 15.	No verified direct reference in this release
`At1g11620`	Putative F-box/LRR-repeat/kelch-repeat protein At1g11620.	No verified direct reference in this release
`At3g23880`	F-box/kelch-repeat protein At3g23880.	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_001960 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0000325 plant-type vacuole Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005739 mitochondrion Cellular Component

KEGG gene cross-reference

ath:AT1G11620

ath:AT1G12870

ath:AT1G47790

ath:AT3G23880

ath:AT4G04690

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.

Cytoplasm0.485

Rank 1 · LXL04_001960 · OH-1004

Nucleus0.483

Rank 2 · LXL04_001960 · OH-1004

Cell membrane0.102

Rank 3 · LXL04_001960 · OH-1004

Endoplasmic reticulum0.083

Rank 4 · LXL04_001960 · OH-1004

Lysosome / Vacuole0.041

Rank 5 · LXL04_001960 · 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.

PF08268.18FBA_394-199 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_001960	`PF08268.18`	FBA_3	94	199	7.2e-07	29.3

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9FZF8`	Arabidopsis thaliana	Putative F-box protein At1g47790	28.293%	Swiss-Prot	weak database homology
`Q9LPW2`	Arabidopsis thaliana	Putative F-box/kelch-repeat protein At1g12870	27.586%	Swiss-Prot	weak database homology
`Q9S9V1`	Arabidopsis thaliana	Putative F-box only protein 15	24.737%	Swiss-Prot	weak database homology
`Q9SAB5`	Arabidopsis thaliana	Putative F-box/LRR-repeat/kelch-repeat protein At1g11620	25.248%	Swiss-Prot	weak database homology
`Q9LIR8`	Arabidopsis thaliana	F-box/kelch-repeat protein At3g23880	24.201%	Swiss-Prot	weak database homology

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