LXL04_032599 | RubberDandelionOmics

Gene overview

LXL04_032599

Reference: OH-1004 Chr: Chr07 Coordinates: 26096733-26097654 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

831 bp · LXL04_032599|LXL04_032599|OH1004|cDNA

ATGATAATGGATTCTATGGTAGCATCGAGCTCCAAAACCTTCTCCACAAATTCCTTCTTTACTCCTCTTTTCATCTGCATATTGGGAATCGGCGCCACTGCTTTAGCCATACTCATATACCATCTCCTAGTTGTTAGATACTGCATGCGAAGACAAGCCGCGAGAATGGCGTCGATACAGACGTTAGCCGGAGCTGAAATACCCACCGGCGTAGACGAAAAGACGCTTCTAACAATCCCGATAATCGCCTACACGAAACC...

CDS

Download CDS FASTA

831 bp · LXL04_032599|LXL04_032599|OH1004|CDS

ATGATAATGGATTCTATGGTAGCATCGAGCTCCAAAACCTTCTCCACAAATTCCTTCTTTACTCCTCTTTTCATCTGCATATTGGGAATCGGCGCCACTGCTTTAGCCATACTCATATACCATCTCCTAGTTGTTAGATACTGCATGCGAAGACAAGCCGCGAGAATGGCGTCGATACAGACGTTAGCCGGAGCTGAAATACCCACCGGCGTAGACGAAAAGACGCTTCTAACAATCCCGATAATCGCCTACACGAAACC...

Protein

Download Protein FASTA

276 aa · LXL04_032599|LXL04_032599|OH1004|PROTEIN

MIMDSMVASSSKTFSTNSFFTPLFICILGIGATALAILIYHLLVVRYCMRRQAARMASIQTLAGAEIPTGVDEKTLLTIPIIAYTKPDSATDPYECAVCLGDVDNGDMVRMLPNCKHMFHVRCIDDWFAGHTSCPVCRVPVVAPDDDQVRSCPVCRSSVGALGDDRSSVGEGDNQTDSRSAIDVNLDGNDGELTSGPRIRPGEMLRHCNSLVLPRETKEKLSGMELKRSLSMGQSTCVTIDIQIDNVDKDCEYYSSSLRG...

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_032599`
TK1151 ID	TkA08G190580
OH-1004 ID	LXL04_032599
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	93.000
Protein coverage (%)	TK1151 95.572 / OH-1004 97.826 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_032599

Location Chr07:26096733-26097654 (+)

Description Similar to ATL1: RING-H2 finger protein ATL1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g04360`	RING-H2 finger protein ATL1.	No verified direct reference in this release
`At5g17600`	RING-H2 finger protein ATL52.	No verified direct reference in this release
`At4g17905`	Putative RING-H2 finger protein ATL53.	No verified direct reference in this release
`At5g05280`	RING-H2 finger protein ATL73.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os04g0590900`	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_032599 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009555 pollen development Biological Process

GO:0009901 anther dehiscence Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0048443 stamen development Biological Process

GO:0080141 regulation of jasmonic acid biosynthetic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0016020 membrane Cellular Component

GO:0004842 ubiquitin-protein transferase activity Molecular Function

GO:0008270 zinc ion binding Molecular Function

GO:0061630 ubiquitin protein ligase activity Molecular Function

KEGG gene cross-reference

ath:AT1G04360

ath:AT4G17905

ath:AT5G05280

ath:AT5G17600

dosa:Os04g0590900

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.

Cell membrane0.359

Rank 1 · LXL04_032599 · OH-1004

Cytoplasm0.264

Rank 2 · LXL04_032599 · OH-1004

Nucleus0.257

Rank 3 · LXL04_032599 · OH-1004

Endoplasmic reticulum0.185

Rank 4 · LXL04_032599 · OH-1004

Lysosome / Vacuole0.126

Rank 5 · LXL04_032599 · 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.

PF13639.13zf-RING_295-138 aa

PF17123.12zf-RING_1195-124 aa

PF13923.13zf-C3HC4_295-137 aa

PF12678.14zf-rbx1105-138 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_032599	`PF13639.13`	zf-RING_2	95	138	3.3e-13	50.4
LXL04_032599	`PF17123.12`	zf-RING_11	95	124	1.6e-11	44.4
LXL04_032599	`PF13923.13`	zf-C3HC4_2	95	137	1.3e-06	28.8
LXL04_032599	`PF12678.14`	zf-rbx1	105	138	2.2e-07	31.7

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
`P93823`	Arabidopsis thaliana	RING-H2 finger protein ATL1	30.612%	Swiss-Prot	weak database homology
`Q9LF64`	Arabidopsis thaliana	RING-H2 finger protein ATL52	28.571%	Swiss-Prot	weak database homology
`P0C041`	Arabidopsis thaliana	Putative RING-H2 finger protein ATL53	27.823%	Swiss-Prot	weak database homology
`Q9FLC6`	Arabidopsis thaliana	RING-H2 finger protein ATL73	38.261%	Swiss-Prot	weak database homology
`Q7XLY8`	Oryza sativa subsp. japonica	E3 ubiquitin-protein ligase Os04g0590900	27.778%	Swiss-Prot	weak database homology

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