LXL04_035589 | RubberDandelionOmics

Gene overview

LXL04_035589

Reference: OH-1004 Chr: Chr08 Coordinates: 25117655-25118095 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

441 bp · LXL04_035589|LXL04_035589|OH1004|cDNA

atgATATGTTTAGTATACGACGGTTATGGAGCTTCCACAACCACCCTTGTGTTCATCACTTGCATTTGGGTACCATTTGTTCAAGCCAAGCATTTGTTTTTTGATATTTTATCAACTCTTATGATGATGTTTCATCAacatgatcatcatcatcaacatcatGATGATGATCATCATGATGGAAATCTGTGGAACATCATTTCAAATGCCTACAATCTTTCAACTCTTCGTTTTCGTGATATTGCTATTGAAGATAGTGG...

CDS

Download CDS FASTA

441 bp · LXL04_035589|LXL04_035589|OH1004|CDS

ATGATATGTTTAGTATACGACGGTTATGGAGCTTCCACAACCACCCTTGTGTTCATCACTTGCATTTGGGTACCATTTGTTCAAGCCAAGCATTTGTTTTTTGATATTTTATCAACTCTTATGATGATGTTTCATCAACATGATCATCATCATCAACATCATGATGATGATCATCATGATGGAAATCTGTGGAACATCATTTCAAATGCCTACAATCTTTCAACTCTTCGTTTTCGTGATATTGCTATTGAAGATAGTGG...

Protein

Download Protein FASTA

146 aa · LXL04_035589|LXL04_035589|OH1004|PROTEIN

MICLVYDGYGASTTTLVFITCIWVPFVQAKHLFFDILSTLMMMFHQHDHHHQHHDDDHHDGNLWNIISNAYNLSTLRFRDIAIEDSGNARVVDDTCSICLAKFEEEDAVSQLKRCDHVFHTCCIERWLSRDNFTCPLCRSNLLHVP

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_035589`
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_035589

Location Chr08:25117655-25118095 (-)

Description Similar to ATL18: RING-H2 finger protein ATL18

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g38140`	RING-H2 finger protein ATL18.	No verified direct reference in this release
`At2g04240`	Function on abscisic acid homeostasis at post-translational level, probably through ubiquitin/proteasome-dependent substrate- specific degradation.	Upregulation of an Arabidopsis RING-H2 gene, XERICO, confers drought tolerance through increased abscisic acid biosynthesis.2006 · DOI: 10.1111/j.1365-313x.2006.02782.x Global analysis of della direct targets in early gibberellin signaling in Arabidopsis.2007 · DOI: 10.1105/tpc.107.054999
`At1g72200`	RING-H2 finger protein ATL11.	No verified direct reference in this release
`At3g61460`	May be involved in the brassinosteroids (BRs) signaling pathway and regulate the growth and development of rosette leaves.	Characterisation of BRH1, a brassinosteroid-responsive RING-H2 gene from Arabidopsis thaliana.2002 · DOI: 10.1007/s00425-001-0723-z Overexpressed BRH1, a RING finger gene, alters rosette leaf shape in Arabidopsis thaliana.2018 · DOI: 10.1007/s11427-017-9133-8

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_035589 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0006970 response to osmotic stress Biological Process

GO:0009651 response to salt stress Biological Process

GO:0009687 abscisic acid metabolic process Biological Process

GO:0009688 abscisic acid biosynthetic process Biological Process

GO:0009739 response to gibberellin Biological Process

GO:0009741 response to brassinosteroid Biological Process

GO:0009742 brassinosteroid mediated signaling pathway Biological Process

GO:0010200 response to chitin Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:1901371 regulation of leaf morphogenesis Biological Process

GO:1905421 regulation of plant organ morphogenesis Biological Process

KEGG gene cross-reference

ath:AT1G72200

ath:AT2G04240

ath:AT3G61460

ath:AT4G38140

spo:2541304

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.

Cytoplasm0.245

Rank 1 · LXL04_035589 · OH-1004

Lysosome / Vacuole0.244

Rank 2 · LXL04_035589 · OH-1004

Cell membrane0.243

Rank 3 · LXL04_035589 · OH-1004

Endoplasmic reticulum0.242

Rank 4 · LXL04_035589 · OH-1004

Nucleus0.207

Rank 5 · LXL04_035589 · 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.

PF12678.14zf-rbx193-139 aa

PF13639.13zf-RING_294-139 aa

PF00097.32zf-C3HC496-138 aa

PF17123.12zf-RING_1196-124 aa

PF13923.13zf-C3HC4_296-138 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_035589	`PF12678.14`	zf-rbx1	93	139	3.1e-09	37.7
LXL04_035589	`PF13639.13`	zf-RING_2	94	139	3.4e-13	50.3
LXL04_035589	`PF00097.32`	zf-C3HC4	96	138	5e-08	33.4
LXL04_035589	`PF17123.12`	zf-RING_11	96	124	4.4e-07	30.2
LXL04_035589	`PF13923.13`	zf-C3HC4_2	96	138	5e-07	30.1

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
`Q9SZL4`	Arabidopsis thaliana	RING-H2 finger protein ATL18	49.315%	Swiss-Prot	moderate database homology
`Q9SI09`	Arabidopsis thaliana	Probable E3 ubiquitin-protein ligase XERICO	41.667%	Swiss-Prot	weak database homology
`Q84W40`	Arabidopsis thaliana	RING-H2 finger protein ATL11	40.541%	Swiss-Prot	moderate database homology
`Q9XF92`	Arabidopsis thaliana	Brassinosteroid-responsive RING protein 1	35.211%	Swiss-Prot	weak database homology

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