LXL04_028967 | RubberDandelionOmics

Gene overview

LXL04_028967

Reference: OH-1004 Chr: Chr06 Coordinates: 76196695-76198240 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

879 bp · LXL04_028967|LXL04_028967|OH1004|cDNA

ATGGAGTCGtcgtcatcatcatcatctagCCGCCGCAGGCAATCACCCTATTCTAATCTCAATCAAGAACGCTTTCTACGAAAGCACTTAAGGCCAGCAATTACGGGCAAATCGTGCCCAATTTGTTTAAGCCTAATCGAAGAAGCAGCTGTAATTACTGTATGTTTGCACGCCTACTGCGCCGATTGCATTCGTAAATGGAGTAATCTGAAAAGAAAGTGTCCCCTTTGTAATGCTCAGTACGGTTCGCTGTTCGTCGT...

CDS

Download CDS FASTA

879 bp · LXL04_028967|LXL04_028967|OH1004|CDS

ATGGAGTCGTCGTCATCATCATCATCTAGCCGCCGCAGGCAATCACCCTATTCTAATCTCAATCAAGAACGCTTTCTACGAAAGCACTTAAGGCCAGCAATTACGGGCAAATCGTGCCCAATTTGTTTAAGCCTAATCGAAGAAGCAGCTGTAATTACTGTATGTTTGCACGCCTACTGCGCCGATTGCATTCGTAAATGGAGTAATCTGAAAAGAAAGTGTCCCCTTTGTAATGCTCAGTACGGTTCGCTGTTCGTCGT...

Protein

Download Protein FASTA

292 aa · LXL04_028967|LXL04_028967|OH1004|PROTEIN

MESSSSSSSSRRRQSPYSNLNQERFLRKHLRPAITGKSCPICLSLIEEAAVITVCLHAYCADCIRKWSNLKRKCPLCNAQYGSLFVVIDLNSRTFHTKHLSAPRETKFNNNIGHSNGRQRNFIAQRRAIGISREELNAVNRRTRTLPRQRSFGQTKVLPPGVINERILQWRASIYEEKLHAVPCPTRRPIEQGLMGIKGNKERVVERIQPWIHRELHAVLGDPDPAILVHLVTSLFISALEFPSENKHVETLRPFFMEKT...

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_028967`
TK1151 ID	TkA07G255420
OH-1004 ID	LXL04_028967
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.700
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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID	`LXL04_028967`
Location	Chr06:76196695-76198240 (+)
Description	Similar to Topors: E3 ubiquitin-protein ligase Topors
Arabidopsis / Rice Reference Genes and Papers	Download references for this gene Arabidopsis No hit for this species in the current source table. Rice No hit for this species in the current source table.
Functional annotation source	View annotation sources Functional annotation source: OH1004 · `LXL04_028967` · GCA_047496595.1_OSU_TarKok_2.0.
GO annotations (OH1004 source)	GO:0000209 protein polyubiquitination Biological Process GO:0006325 chromatin organization Biological Process GO:0006351 DNA-templated transcription Biological Process GO:0006355 regulation of DNA-templated transcription Biological Process GO:0006511 ubiquitin-dependent protein catabolic process Biological Process GO:0006513 protein monoubiquitination Biological Process GO:0006974 DNA damage response Biological Process GO:0006997 nucleus organization Biological Process GO:0007060 male meiosis chromosome segregation Biological Process GO:0010032 meiotic chromosome condensation Biological Process GO:0016925 protein sumoylation Biological Process GO:0019046 release from viral latency Biological Process
KEGG gene cross-reference	dme:Dmel_CG15104 hsa:10210 mmu:106021 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.

Nucleus0.875

Rank 1 · LXL04_028967 · OH-1004

Cytoplasm0.192

Rank 2 · LXL04_028967 · OH-1004

Cell membrane0.026

Rank 3 · LXL04_028967 · OH-1004

Endoplasmic reticulum0.016

Rank 4 · LXL04_028967 · OH-1004

Mitochondrion0.014

Rank 5 · LXL04_028967 · 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.

PF13920.13zf-C3HC4_337-80 aa

PF12678.14zf-rbx137-78 aa

PF13639.13zf-RING_238-78 aa

PF13923.13zf-C3HC4_239-77 aa

PF00097.32zf-C3HC439-77 aa

PF13445.13zf-RING_UBOX39-75 aa

PF14634.13zf-RING_539-78 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_028967	`PF13920.13`	zf-C3HC4_3	37	80	1.3e-06	28.8
LXL04_028967	`PF12678.14`	zf-rbx1	37	78	7.8e-06	26.8
LXL04_028967	`PF13639.13`	zf-RING_2	38	78	3.1e-09	37.6
LXL04_028967	`PF13923.13`	zf-C3HC4_2	39	77	3.8e-10	40.1
LXL04_028967	`PF00097.32`	zf-C3HC4	39	77	1.6e-09	38.2
LXL04_028967	`PF13445.13`	zf-RING_UBOX	39	75	2e-07	31.6
LXL04_028967	`PF14634.13`	zf-RING_5	39	78	1.8e-06	28.5

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.

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