LXL04_012249 | RubberDandelionOmics

Gene overview

LXL04_012249

Reference: OH-1004 Chr: Chr03 Coordinates: 9069839-9071094 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

396 bp · LXL04_012249|LXL04_012249|OH1004|cDNA

ATGGGGCGATTGTTTCAAGTCACGTTAGAGGGCAAATTTTACACCTGTAAACACTGCAAAACCCATCTTGCTCTTTGCGATGATATCGTTTCAAAGGCCTTTCATTGCAAGGATGGAAAGGCATATCTCTTCAGTAAGGTAGTGAATGTGACTATTGGTGTGAAGGAAGATAGGCTGATGATGACGGGGCTGCACACGGTTGCTGACATTTTTTGTGTTGCATGTGGATCAATTGTTGGATGGACATATGAAACCGCTCA...

CDS

Download CDS FASTA

396 bp · LXL04_012249|LXL04_012249|OH1004|CDS

ATGGGGCGATTGTTTCAAGTCACGTTAGAGGGCAAATTTTACACCTGTAAACACTGCAAAACCCATCTTGCTCTTTGCGATGATATCGTTTCAAAGGCCTTTCATTGCAAGGATGGAAAGGCATATCTCTTCAGTAAGGTAGTGAATGTGACTATTGGTGTGAAGGAAGATAGGCTGATGATGACGGGGCTGCACACGGTTGCTGACATTTTTTGTGTTGCATGTGGATCAATTGTTGGATGGACATATGAAACCGCTCA...

Protein

Download Protein FASTA

131 aa · LXL04_012249|LXL04_012249|OH1004|PROTEIN

MGRLFQVTLEGKFYTCKHCKTHLALCDDIVSKAFHCKDGKAYLFSKVVNVTIGVKEDRLMMTGLHTVADIFCVACGSIVGWTYETAHEKSQKYKEGKSVLERGKLRGPDGSSYWVSHEVQAHFGGSDQDDV

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_012249`
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_012249

Location Chr03:9069839-9071094 (+)

Description Similar to Protein yippee-like

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g11230`	Protein yippee-like At3g11230.	No verified direct reference in this release
`At3g08990`	Protein yippee-like At3g08990.	No verified direct reference in this release
`At3g55890`	Protein yippee-like At3g55890.	No verified direct reference in this release
`At5g53940`	Protein yippee-like At5g53940.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_012249 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000151 ubiquitin ligase complex Cellular Component

GO:0005634 nucleus Cellular Component

GO:0046872 metal ion binding Molecular Function

KEGG gene cross-reference

ath:AT3G08990

ath:AT3G11230

ath:AT3G55890

ath:AT5G53940

sot:102577430

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.

Nucleus0.668

Rank 1 · LXL04_012249 · OH-1004

Cytoplasm0.511

Rank 2 · LXL04_012249 · OH-1004

Cell membrane0.052

Rank 3 · LXL04_012249 · OH-1004

Endoplasmic reticulum0.043

Rank 4 · LXL04_012249 · OH-1004

Mitochondrion0.042

Rank 5 · LXL04_012249 · 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.

PF03226.22Yippee-Mis1814-106 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_012249	`PF03226.22`	Yippee-Mis18	14	106	1.6e-12	48.2

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
`Q9C777`	Arabidopsis thaliana	Protein yippee-like At3g11230	71.756%	Swiss-Prot	strong database homology
`Q9SR97`	Arabidopsis thaliana	Protein yippee-like At3g08990	66.372%	Swiss-Prot	strong database homology
`Q9LY56`	Arabidopsis thaliana	Protein yippee-like At3g55890	67.241%	Swiss-Prot	strong database homology
`Q9FN32`	Arabidopsis thaliana	Protein yippee-like At5g53940	64.762%	Swiss-Prot	strong database homology

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