LXL04_007012 | RubberDandelionOmics

Gene overview

LXL04_007012

Reference: OH-1004 Chr: Chr02 Coordinates: 33699997-33703537 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1813 bp · LXL04_007012|LXL04_007012|OH1004|cDNA

CTCCCCCAATTTCGACGATGGAGCTGACATATTCTCTCCAATGATGCCAAGTGAAAGTGATTCCATGATGGTGAAGAGAAAAGAAATGGCAGGTCTTGAGCTCGAAGGTAGCAGAAGATCAAAAAAGAAGAAGCAAGGTGGCACACCTCGTCCAGCTTGCTCTTGGGTACATTTTAGCCGTGAATTCATCAAAGAGTACAGTGCTTCCCATCCCGAATCTTCTGGTCTCAAAGTTGCAACAAGAGCAGCCTCAGATGCTT...

CDS

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1773 bp · LXL04_007012|LXL04_007012|OH1004|CDS

ATGATGCCAAGTGAAAGTGATTCCATGATGGTGAAGAGAAAAGAAATGGCAGGTCTTGAGCTCGAAGGTAGCAGAAGATCAAAAAAGAAGAAGCAAGGTGGCACACCTCGTCCAGCTTGCTCTTGGGTACATTTTAGCCGTGAATTCATCAAAGAGTACAGTGCTTCCCATCCCGAATCTTCTGGTCTCAAAGTTGCAACAAGAGCAGCCTCAGATGCTTGGAAAGTCATGACCCTCGAAGAAAAGTCAAAATACACAAA...

Protein

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590 aa · LXL04_007012|LXL04_007012|OH1004|PROTEIN

MMPSESDSMMVKRKEMAGLELEGSRRSKKKKQGGTPRPACSWVHFSREFIKEYSASHPESSGLKVATRAASDAWKVMTLEEKSKYTKRAREVWDDYLSSAPAREPKPRKQANLVTRCSPGRLVNVLKHFTVDQKEAVKSMGFGSLLDLKCRTLRRSLCLWLLERFNTIRRSLEICGERIPLYPHDVELVMGLPATGKDVVNSGPDDLVTELRQKYNASNRGISVRFLEERLGQPEAGDDFKRAFLLYVLGTLLCPTARLD...

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_007012`
TK1151 ID	TkA02G565690
OH-1004 ID	LXL04_007012
Relationship / confidence	Rbh High Identity Coverage Local Synteny Minor Chr Pair / Probable
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

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_007012

Location Chr02:33699997-33703537 (-)

Description No functional description available

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g17930`	Required for the organization of the root apical meristem (RAM) and the shoot apical meristem (SAM).	Identification of MAIN, a factor involved in genome stability in the meristems of Arabidopsis thaliana.2013 · DOI: 10.1111/tpj.12215
`At5g37930`	E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins.	No verified direct reference in this release
`At1g66620`	E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins.	No verified direct reference in this release
`At2g25010`	Acts as an important factor for cell fate determination and maintenance throughout plant development.	MAIN-LIKE1 is a crucial factor for correct cell division and differentiation in Arabidopsis thaliana.2014 · DOI: 10.1111/tpj.12455
`At1g66630`	E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target 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_007012 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0010073 meristem maintenance Biological Process

GO:0010082 regulation of root meristem growth Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0048507 meristem development Biological Process

GO:0005634 nucleus Cellular Component

GO:0008270 zinc ion binding Molecular Function

GO:0008483 transaminase activity Molecular Function

GO:0061630 ubiquitin protein ligase activity Molecular Function

KEGG gene cross-reference

ath:AT1G17930

ath:AT1G66620

ath:AT1G66630

ath:AT2G25010

ath:AT5G37930

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.

Nucleus0.675

Rank 1 · LXL04_007012 · OH-1004

Cytoplasm0.319

Rank 2 · LXL04_007012 · OH-1004

Cell membrane0.066

Rank 3 · LXL04_007012 · OH-1004

Endoplasmic reticulum0.047

Rank 4 · LXL04_007012 · OH-1004

Mitochondrion0.043

Rank 5 · LXL04_007012 · 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.

PF00505.26HMG_box36-102 aa

PF29561.1DUF8566115-311 aa

PF10536.15PMD184-323 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_007012	`PF00505.26`	HMG_box	36	102	3.4e-08	34.5
LXL04_007012	`PF29561.1`	DUF8566	115	311	8.7e-66	222.3
LXL04_007012	`PF10536.15`	PMD	184	323	3.1e-11	43.8

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
`Q9LMT7`	Arabidopsis thaliana	Protein MAINTENANCE OF MERISTEMS	28.000%	Swiss-Prot	weak database homology
`Q84K34`	Arabidopsis thaliana	E3 ubiquitin-protein ligase SINA-like 10	26.056%	Swiss-Prot	weak database homology
`Q9C6H3`	Arabidopsis thaliana	E3 ubiquitin-protein ligase SINA-like 2	27.778%	Swiss-Prot	weak database homology
`Q9SK32`	Arabidopsis thaliana	Protein MAIN-LIKE 1	25.551%	Swiss-Prot	weak database homology
`Q9C6H2`	Arabidopsis thaliana	E3 ubiquitin-protein ligase SINA-like 3	25.153%	Swiss-Prot	weak database homology

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