LXL04_020998 | RubberDandelionOmics

Gene overview

LXL04_020998

Reference: OH-1004 Chr: Chr04 Coordinates: 118364449-118365337 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

485 bp · LXL04_020998|LXL04_020998|OH1004|cDNA

CCAAATACTTTGAATAGGTGACCACAATGTCAACTCCTGCTAGAAAGAGGCTTATGCGGGATTTCAAGAGACTCCAACAGGACCCTCCTGCAGGCATTAGTGGAGCTCCCCAAGACAATAATATAATGTTGTGGAACGCTGTAATATTTGGACCAGATGACAGTCCATGGGATGGAGGTACATTTAAATTGGCGCTACAATATTCAGAGGATTATCCAAATAAGGCACCAACCGTGCGATTTGTTTCTCGCATGTTTCAC...

CDS

Download CDS FASTA

459 bp · LXL04_020998|LXL04_020998|OH1004|CDS

ATGTCAACTCCTGCTAGAAAGAGGCTTATGCGGGATTTCAAGAGACTCCAACAGGACCCTCCTGCAGGCATTAGTGGAGCTCCCCAAGACAATAATATAATGTTGTGGAACGCTGTAATATTTGGACCAGATGACAGTCCATGGGATGGAGGTACATTTAAATTGGCGCTACAATATTCAGAGGATTATCCAAATAAGGCACCAACCGTGCGATTTGTTTCTCGCATGTTTCACCCAAATATTTATGCTGATGGAAGTAT...

Protein

Download Protein FASTA

152 aa · LXL04_020998|LXL04_020998|OH1004|PROTEIN

MSTPARKRLMRDFKRLQQDPPAGISGAPQDNNIMLWNAVIFGPDDSPWDGGTFKLALQYSEDYPNKAPTVRFVSRMFHPNIYADGSICLDILQNQWSPIYDVAAILTSIQSLLCDPNPNSPANSEAARAFSENKREYNRRVREIVEQSWNAD

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_020998`
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_020998

Location Chr04:118364449-118365337 (-)

Description Similar to UBC2: Ubiquitin-conjugating enzyme E2 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g02760`	Accepts the ubiquitin from the E1 complex and catalyzes its covalent attachment to other proteins.	No verified direct reference in this release
`At1g14400`	Accepts the ubiquitin from the E1 complex and catalyzes its covalent attachment to other proteins.	No verified direct reference in this release
`At5g62540`	Accepts the ubiquitin from the E1 complex and catalyzes its covalent attachment to other proteins.	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_020998 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000209 protein polyubiquitination Biological Process

GO:0006281 DNA repair Biological Process

GO:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0010228 vegetative to reproductive phase transition of meristem Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0005829 cytosol Cellular Component

GO:0004842 ubiquitin-protein transferase activity Molecular Function

GO:0005524 ATP binding Molecular Function

GO:0061631 ubiquitin conjugating enzyme activity Molecular Function

GO:0140936 histone H2B deubiquitinase activity Molecular Function

KEGG gene cross-reference

ath:AT1G14400

ath:AT2G02760

ath:AT5G62540

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.

Nucleus0.627

Rank 1 · LXL04_020998 · OH-1004

Cytoplasm0.554

Rank 2 · LXL04_020998 · OH-1004

Cell membrane0.064

Rank 3 · LXL04_020998 · OH-1004

Endoplasmic reticulum0.056

Rank 4 · LXL04_020998 · OH-1004

Mitochondrion0.040

Rank 5 · LXL04_020998 · 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.

PF00179.32UQ_con8-144 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_020998	`PF00179.32`	UQ_con	8	144	2.3e-51	173.8

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
`P42745`	Arabidopsis thaliana	Ubiquitin-conjugating enzyme E2 2	94.737%	Swiss-Prot	strong database homology
`P25865`	Arabidopsis thaliana	Ubiquitin-conjugating enzyme E2 1	93.421%	Swiss-Prot	strong database homology
`P42746`	Arabidopsis thaliana	Ubiquitin-conjugating enzyme E2 3	85.235%	Swiss-Prot	strong database homology

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