LXL04_007220 | RubberDandelionOmics

Gene overview

LXL04_007220

Reference: OH-1004 Chr: Chr02 Coordinates: 40098975-40102844 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1803 bp · LXL04_007220|LXL04_007220|OH1004|cDNA

ATGTCGGGTAATTTCTTCCAGAAGCAGGACAACTTTGTAGAGATTCTGGATAGCGATGATGAAGACGATGATCGATCAAGTCGACCAGAAGTACAGAATAACGGAACGATCGAGTCCGATGACCGGAAATTGGAGAACCGGAGCTTTTGGAAAGCAGGAGTGTTTGAGATTGGTCCAGTAAAATGGACTCCTTCCCAAGATGAATTGGAACATGCTCGTGTACACCCAAAATTTCTTCATTCCAATGCAACTTCACACAA...

CDS

Download CDS FASTA

1803 bp · LXL04_007220|LXL04_007220|OH1004|CDS

ATGTCGGGTAATTTCTTCCAGAAGCAGGACAACTTTGTAGAGATTCTGGATAGCGATGATGAAGACGATGATCGATCAAGTCGACCAGAAGTACAGAATAACGGAACGATCGAGTCCGATGACCGGAAATTGGAGAACCGGAGCTTTTGGAAAGCAGGAGTGTTTGAGATTGGTCCAGTAAAATGGACTCCTTCCCAAGATGAATTGGAACATGCTCGTGTACACCCAAAATTTCTTCATTCCAATGCAACTTCACACAA...

Protein

Download Protein FASTA

600 aa · LXL04_007220|LXL04_007220|OH1004|PROTEIN

MSGNFFQKQDNFVEILDSDDEDDDRSSRPEVQNNGTIESDDRKLENRSFWKAGVFEIGPVKWTPSQDELEHARVHPKFLHSNATSHKWAFGAIAELLDNAVDEINNGATFVKVDRIFSKRDNSPALLFLDDGGGMDPEGMRKCMSLGYSTKKSNNTIGQYGNGFKTSTMRLGADVIVFSRASRKGKATQSVGLLSYTFLRRTGQDDVIVPMIDFDISKHWAEPLVYGTPDDWSTNLNTILEWSPFASKDDLIHQFEDIGP...

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_007220`
TK1151 ID	TkA03G141100
OH-1004 ID	LXL04_007220
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	98.800
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_007220

Location Chr02:40098975-40102844 (+)

Description Similar to MORC2: Protein MICRORCHIDIA 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g36280`	Mediator of defense signaling triggered by distinct classes of R proteins.	Endosome-associated CRT1 functions early in resistance gene-mediated defense signaling in Arabidopsis and tobacco.2010 · DOI: 10.1105/tpc.109.071662 CRT1 is a nuclear-translocated MORC endonuclease that participates in multiple levels of plant immunity.2012 · DOI: 10.1038/ncomms2279 Transcriptional gene silencing by Arabidopsis microrchidia homologues involves the formation of heteromers.2014 · DOI: 10.1073/pnas.1406611111
`At4g36290`	Mediator of defense signaling triggered by distinct classes of R proteins.	MORC family ATPases required for heterochromatin condensation and gene silencing.2012 · DOI: 10.1126/science.1221472 Transcriptional gene silencing by Arabidopsis microrchidia homologues involves the formation of heteromers.2014 · DOI: 10.1073/pnas.1406611111
`At4g36270`	Exhibits ATPase activity.	No verified direct reference in this release
`At1g19100`	Involved in RNA-directed DNA methylation (RdDM) as a component of the RdDM machinery and required for gene silencing.	MORC family ATPases required for heterochromatin condensation and gene silencing.2012 · DOI: 10.1126/science.1221472 Involvement of a GHKL ATPase in RNA-directed DNA methylation in Arabidopsis thaliana.2012 · DOI: 10.1016/j.cub.2012.03.061 The stochastic silencing phenotype of Arabidopsis morc6 mutants reveals a role in efficient RNA-directed DNA methylation.2013 · DOI: 10.1111/tpj.12246 Arabidopsis AtMORC4 and AtMORC7 Form Nuclear Bodies and Repress a Large Number of Protein-Coding Genes.2016 · DOI: 10.1371/journal.pgen.1005998 Two Components of the RNA-Directed DNA Methylation Pathway Associate with MORC6 and Silence Loci Targeted by MORC6 in Arabidopsis.2016 · DOI: 10.1371/journal.pgen.1006026
`At5g50780`	Exhibits ATPase activity.	Arabidopsis AtMORC4 and AtMORC7 Form Nuclear Bodies and Repress a Large Number of Protein-Coding Genes.2016 · DOI: 10.1371/journal.pgen.1005998

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_007220 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0002230 positive regulation of defense response to virus by host Biological Process

GO:0006281 DNA repair Biological Process

GO:0006282 regulation of DNA repair Biological Process

GO:0006325 chromatin organization Biological Process

GO:0009626 plant-type hypersensitive response Biological Process

GO:0031047 regulatory ncRNA-mediated gene silencing Biological Process

GO:0031349 positive regulation of defense response Biological Process

GO:0034052 positive regulation of plant-type hypersensitive response Biological Process

GO:0051607 defense response to virus Biological Process

GO:0060966 regulation of gene silencing by regulatory ncRNA Biological Process

GO:0080188 gene silencing by siRNA-directed DNA methylation Biological Process

GO:0098542 defense response to other organism Biological Process

KEGG gene cross-reference

ath:AT1G19100

ath:AT4G36270

ath:AT4G36280

ath:AT4G36290

ath:AT5G50780

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_007220 · OH-1004

Cytoplasm0.156

Rank 2 · LXL04_007220 · OH-1004

Cell membrane0.035

Rank 3 · LXL04_007220 · OH-1004

Mitochondrion0.028

Rank 4 · LXL04_007220 · OH-1004

Endoplasmic reticulum0.020

Rank 5 · LXL04_007220 · 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.

PF13589.13HATPase_c_390-199 aa

PF17942.9Morc6_S5318-456 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_007220	`PF13589.13`	HATPase_c_3	90	199	9.8e-16	58.7
LXL04_007220	`PF17942.9`	Morc6_S5	318	456	5.7e-61	205.3

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
`Q5FV35`	Arabidopsis thaliana	Protein MICRORCHIDIA 2	57.329%	Swiss-Prot	strong database homology
`Q84WV6`	Arabidopsis thaliana	Protein MICRORCHIDIA 1	58.722%	Swiss-Prot	strong database homology
`F4JPP0`	Arabidopsis thaliana	Protein MICRORCHIDIA 3	53.952%	Swiss-Prot	strong database homology
`Q56Y74`	Arabidopsis thaliana	Protein MICRORCHIDIA 6	54.481%	Swiss-Prot	moderate database homology
`F4KAF2`	Arabidopsis thaliana	Protein MICRORCHIDIA 4	52.336%	Swiss-Prot	strong database homology

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