LXL04_033671 | RubberDandelionOmics

Gene overview

LXL04_033671

Reference: OH-1004 Chr: Chr07 Coordinates: 52583553-52585890 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1892 bp · LXL04_033671|LXL04_033671|OH1004|cDNA

AAGATCTACCTACTTCCAACCTCAGCTCCCCCACCATCTTCTACTCCTCCCATATGTCGCCGCTTGCGCACCTTAAATCTCTTTAGAAAAATCCAACAACGACCCTGCCTTCCCCATCTCCTCCGATTGCTATCCATGTATCTTCACCAAATTTAAAAGACATGTCTTCTTCAGGGGTCAACCTTGAAAATTATCTAATTCCGTTGGAGGAAATCACTCGTGCCACGGAAAACTTCATTCAAGAAAGATGTATTGGAGGC...

CDS

Download CDS FASTA

1788 bp · LXL04_033671|LXL04_033671|OH1004|CDS

CTGCCTTCCCCATCTCCTCCGATTGCTATCCATGTATCTTCACCAAATTTAAAAGACATGTCTTCTTCAGGGGTCAACCTTGAAAATTATCTAATTCCGTTGGAGGAAATCACTCGTGCCACGGAAAACTTCATTCAAGAAAGATGTATTGGAGGCGGTGGATTTGGTTTAGTCTACAAAGGCCAACTTTCTGACCGATGGCAAAACCGTACAGCTGCTATCAAACGGCTAGGTCGAGATAGCTGCCAAGGAGAGCGCGA...

Protein

Download Protein FASTA

595 aa · LXL04_033671|LXL04_033671|OH1004|PROTEIN

MPSPSPPIAIHVSSPNLKDMSSSGVNLENYLIPLEEITRATENFIQERCIGGGGFGLVYKGQLSDRWQNRTAAIKRLGRDSCQGEREFRTELEMISRFHHENIISFIGYCDEGNEMILVYDYAINGSLDHHLQDPSKMCCITWTQRLKICIGAARGLNYLHSGLGEHNRVIHRDVKSSNILLDENLVAKICDFGLSKVGPRNQPDTQLYTRVAGTQFYLDPTYHESRILRKESDVYSFGIVMFEILSGMLVYRENNEQQL...

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_033671`
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_033671

Location Chr07:52583553-52585890 (-)

Description Similar to PUB13: U-box domain-containing protein 13

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g46510`	Functions as an E3 ubiquitin ligase.	No verified direct reference in this release
`At2g28830`	Functions as an E3 ubiquitin ligase.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os12g0570000`	E3 ubiquitin-protein ligase that negatively regulates programmed cell death and disease resistance.	Spotted leaf11, a negative regulator of plant cell death and defense, encodes a U-box/armadillo repeat protein endowed with E3 ubiquitin ligase activity.2004 · DOI: 10.1105/tpc.104.025171 SPIN1, a K homology domain protein negatively regulated and ubiquitinated by the E3 ubiquitin ligase SPL11, is involved in flowering time control in rice.2008 · DOI: 10.1105/tpc.108.058610
`UniProt: A2ZLU6`	Defense related protein that negatively regulates programmed cell death.	No verified direct reference in this release
`Os06g0102700`	Possesses E3 ubiquitin-protein ligase in vitro.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_033671 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0007166 cell surface receptor signaling pathway Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0042742 defense response to bacterium Biological Process

GO:0050777 negative regulation of immune response Biological Process

GO:2000028 regulation of photoperiodism, flowering Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

GO:0004842 ubiquitin-protein transferase activity Molecular Function

GO:0061630 ubiquitin protein ligase activity Molecular Function

GO:0070696 transmembrane receptor protein serine/threonine kinase binding Molecular Function

KEGG gene cross-reference

ath:AT2G28830

ath:AT3G46510

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.

Cytoplasm0.516

Rank 1 · LXL04_033671 · OH-1004

Cell membrane0.319

Rank 2 · LXL04_033671 · OH-1004

Nucleus0.303

Rank 3 · LXL04_033671 · OH-1004

Golgi apparatus0.044

Rank 4 · LXL04_033671 · OH-1004

Endoplasmic reticulum0.043

Rank 5 · LXL04_033671 · 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.

PF00069.32Pkinase46-316 aa

PF07714.24PK_Tyr_Ser-Thr47-317 aa

PF25598.2ARM_PUB348-582 aa

PF24768.2ARM_ARMC5354-516 aa

PF00514.30Arm369-408 aa

PF00514.30Arm412-449 aa

PF00514.30Arm534-573 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_033671	`PF00069.32`	Pkinase	46	316	9e-45	153.8
LXL04_033671	`PF07714.24`	PK_Tyr_Ser-Thr	47	317	1.8e-44	152.7
LXL04_033671	`PF25598.2`	ARM_PUB	348	582	1.1e-17	65.1
LXL04_033671	`PF24768.2`	ARM_ARMC5	354	516	1.6e-13	51.4
LXL04_033671	`PF00514.30`	Arm	369	408	2.8e-36	123.1
LXL04_033671	`PF00514.30`	Arm	412	449	2.8e-36	123.1
LXL04_033671	`PF00514.30`	Arm	534	573	2.8e-36	123.1

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
`Q9SNC6`	Arabidopsis thaliana	U-box domain-containing protein 13	62.000%	Swiss-Prot	weak database homology
`Q9ZV31`	Arabidopsis thaliana	U-box domain-containing protein 12	61.224%	Swiss-Prot	weak database homology
`Q0IMG9`	Oryza sativa subsp. japonica	E3 ubiquitin-protein ligase SPL11	64.348%	Swiss-Prot	weak database homology
`A2ZLU6`	Oryza sativa subsp. indica	Protein spotted leaf 11	64.348%	Swiss-Prot	weak database homology
`Q5VRH9`	Oryza sativa subsp. japonica	U-box domain-containing protein 12	57.661%	Swiss-Prot	weak database homology

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