LXL04_011441 | RubberDandelionOmics

Gene overview

LXL04_011441

Reference: OH-1004 Chr: Chr02 Coordinates: 164250854-164255401 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3063 bp · LXL04_011441|LXL04_011441|OH1004|cDNA

ATGGAAGAAAGAGACAACAAGAAATGCACAGCGAAAACAAAGAGTTTCAGAGGAAGAACACATAATAACCCACCACACCAAAACCtttatcatcatcatcatcttcttcatcttcatcccCACTATCTTTTACAGCATTCGAACGGAAATTTCGGGTTTTTTAATCAAAATCTGTACCACTCTCCTTCACCGCCTCTTCTTCCATTACCCCCACCTCAATACGCCATAACTCCATCTCTACATCTCCCTCTTCCTCTACC...

CDS

Download CDS FASTA

3063 bp · LXL04_011441|LXL04_011441|OH1004|CDS

ATGGAAGAAAGAGACAACAAGAAATGCACAGCGAAAACAAAGAGTTTCAGAGGAAGAACACATAATAACCCACCACACCAAAACCTTTATCATCATCATCATCTTCTTCATCTTCATCCCCACTATCTTTTACAGCATTCGAACGGAAATTTCGGGTTTTTTAATCAAAATCTGTACCACTCTCCTTCACCGCCTCTTCTTCCATTACCCCCACCTCAATACGCCATAACTCCATCTCTACATCTCCCTCTTCCTCTACC...

Protein

Download Protein FASTA

1020 aa · LXL04_011441|LXL04_011441|OH1004|PROTEIN

MEERDNKKCTAKTKSFRGRTHNNPPHQNLYHHHHLLHLHPHYLLQHSNGNFGFFNQNLYHSPSPPLLPLPPPQYAITPSLHLPLPLPLNHHAFTPKPHLQKPPWKQNNHHHHHHPPLVATSDSELSHQSALEVIPRTINSTMGPKKDELKPVRDSTLPEPPLMVARRPDSGGTEGTTISLLANHFLVKFDPSQLIYHYDVDISPKPSKDIARLIKKKLVEQNPTLLSGANPSYDGRRSLFSSIEFQQDRLELFIDIPIPI...

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_011441`
TK1151 ID	TkA02G610970
OH-1004 ID	LXL04_011441
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	99.900
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

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Basic Information and Functional Annotation

Gene ID LXL04_011441

Location Chr02:164250854-164255401 (-)

Description Similar to AGO7: Protein argonaute 7

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g69440`	Involved in RNA-mediated post-transcriptional gene silencing (PTGS).	The Arabidopsis heterochronic gene ZIPPY is an ARGONAUTE family member.2003 · DOI: 10.1016/j.cub.2003.09.004 DRB4-dependent TAS3 trans-acting siRNAs control leaf morphology through AGO7.2006 · DOI: 10.1016/j.cub.2006.03.035 Specification of leaf polarity in Arabidopsis via the trans-acting siRNA pathway.2006 · DOI: 10.1016/j.cub.2006.03.064 Genetic interaction between the AS1-AS2 and RDR6-SGS3-AGO7 pathways for leaf morphogenesis.2006 · DOI: 10.1093/pcp/pcj057 Trans-acting siRNA-mediated repression of ETTIN and ARF4 regulates heteroblasty in Arabidopsis.2006 · DOI: 10.1242/dev.02491 A novel class of bacteria-induced small RNAs in Arabidopsis.2007 · DOI: 10.1101/gad.1595107 Arabidopsis DRB4, AGO1, AGO7, and RDR6 participate in a DCL4-initiated antiviral RNA silencing pathway negatively regulated by DCL1.2008 · DOI: 10.1073/pnas.0805760105
`At1g48410`	Involved in RNA-mediated post-transcriptional gene silencing (PTGS).	Arabidopsis ARGONAUTE1 is an RNA Slicer that selectively recruits microRNAs and short interfering RNAs.2005 · DOI: 10.1073/pnas.0505461102 Cucumber mosaic virus-encoded 2b suppressor inhibits Arabidopsis Argonaute1 cleavage activity to counter plant defense.2006 · DOI: 10.1101/gad.1495506 Sorting of small RNAs into Arabidopsis argonaute complexes is directed by the 5' terminal nucleotide.2008 · DOI: 10.1016/j.cell.2008.02.034 Arabidopsis DRB4, AGO1, AGO7, and RDR6 participate in a DCL4-initiated antiviral RNA silencing pathway negatively regulated by DCL1.2008 · DOI: 10.1073/pnas.0805760105 Redundant and specific roles of the ARGONAUTE proteins AGO1 and ZLL in development and small RNA-directed gene silencing.2009 · DOI: 10.1371/journal.pgen.1000646 The Arabidopsis thaliana double-stranded RNA binding protein DRB1 directs guide strand selection from microRNA duplexes.2009 · DOI: 10.1261/rna.1646909 Unique functionality of 22-nt miRNAs in triggering RDR6-dependent siRNA biogenesis from target transcripts in Arabidopsis.2010 · DOI: 10.1038/nsmb.1866 AGO1 defines a novel locus of Arabidopsis controlling leaf development.1998 · DOI: 10.1093/emboj/17.1.170

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0449200`	Involved in the RNA silencing pathway.	Over-expression of rice OsAGO7 gene induces upward curling of the leaf blade that enhanced erect-leaf habit.2007 · DOI: 10.1007/s00425-006-0472-0 The small interfering RNA production pathway is required for shoot meristem initiation in rice.2007 · DOI: 10.1073/pnas.0704339104
`Os04g0566500`	Involved in the RNA silencing pathway, especially during antiviral responses.	No verified direct reference in this release
`Os03g0800200`	Essential for the progression of premeiotic mitosis and meiosis during sporogenesis.	A germ cell specific gene of the ARGONAUTE family is essential for the progression of premeiotic mitosis and meiosis during sporogenesis in rice.2007 · DOI: 10.1105/tpc.107.053199

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_011441 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0007140 male meiotic nuclear division Biological Process

GO:0007143 female meiotic nuclear division Biological Process

GO:0009561 megagametogenesis Biological Process

GO:0009616 RNAi-mediated antiviral immune response Biological Process

GO:0009733 response to auxin Biological Process

GO:0009753 response to jasmonic acid Biological Process

GO:0009850 auxin metabolic process Biological Process

GO:0009955 adaxial/abaxial pattern specification Biological Process

GO:0009965 leaf morphogenesis Biological Process

GO:0010050 vegetative phase change Biological Process

GO:0010218 response to far red light Biological Process

KEGG gene cross-reference

ath:AT1G48410

ath:AT1G69440

dosa:Os03g0449200

dosa:Os03g0800200

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.

Cytoplasm0.551

Rank 1 · LXL04_011441 · OH-1004

Nucleus0.388

Rank 2 · LXL04_011441 · OH-1004

Cell membrane0.088

Rank 3 · LXL04_011441 · OH-1004

Mitochondrion0.067

Rank 4 · LXL04_011441 · OH-1004

Endoplasmic reticulum0.056

Rank 5 · LXL04_011441 · 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.

PF16486.12ArgoN177-320 aa

PF08699.16ArgoL1331-379 aa

PF02170.29PAZ394-514 aa

PF02171.24Piwi678-983 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_011441	`PF16486.12`	ArgoN	177	320	1.2e-29	104.2
LXL04_011441	`PF08699.16`	ArgoL1	331	379	1.2e-16	60.8
LXL04_011441	`PF02170.29`	PAZ	394	514	6.7e-28	97.8
LXL04_011441	`PF02171.24`	Piwi	678	983	1.6e-94	317.3

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
`Q9C793`	Arabidopsis thaliana	Protein argonaute 7	65.525%	Swiss-Prot	strong database homology
`O04379`	Arabidopsis thaliana	Protein argonaute 1	40.089%	Swiss-Prot	moderate database homology
`Q75HC2`	Oryza sativa subsp. japonica	Protein argonaute 7	61.675%	Swiss-Prot	strong database homology
`Q7XSA2`	Oryza sativa subsp. japonica	Protein argonaute 1B	40.135%	Swiss-Prot	moderate database homology
`Q851R2`	Oryza sativa subsp. japonica	Protein argonaute MEL1	39.648%	Swiss-Prot	moderate database homology

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