LXL04_021534 | RubberDandelionOmics

Gene overview

LXL04_021534

Reference: OH-1004 Chr: Chr04 Coordinates: 131922109-131922975 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

867 bp · LXL04_021534|LXL04_021534|OH1004|cDNA

ATGTCAAACCGATGGTGGACCGGGCAACAGGCTAACCTAGCTGGTGTGGAACCATCATCAGGTGGTTCCTTGGGTCTGAAGAAGCCAGATCTGGGAATCTCAATGAAtgaaaacaacaacaacaacactggaagtgaagaagatgaaagaGACAACAACAGCGATGATCCAAGAGAAGGTGCGATCGAGACTTCAAATAGCCGGCGACCTAGAGGCCGTCCACCCGGATCAAAGAACAAACCAAAACCGCCAATTTTCGT...

CDS

Download CDS FASTA

867 bp · LXL04_021534|LXL04_021534|OH1004|CDS

ATGTCAAACCGATGGTGGACCGGGCAACAGGCTAACCTAGCTGGTGTGGAACCATCATCAGGTGGTTCCTTGGGTCTGAAGAAGCCAGATCTGGGAATCTCAATGAATGAAAACAACAACAACAACACTGGAAGTGAAGAAGATGAAAGAGACAACAACAGCGATGATCCAAGAGAAGGTGCGATCGAGACTTCAAATAGCCGGCGACCTAGAGGCCGTCCACCCGGATCAAAGAACAAACCAAAACCGCCAATTTTCGT...

Protein

Download Protein FASTA

288 aa · LXL04_021534|LXL04_021534|OH1004|PROTEIN

MSNRWWTGQQANLAGVEPSSGGSLGLKKPDLGISMNENNNNNTGSEEDERDNNSDDPREGAIETSNSRRPRGRPPGSKNKPKPPIFVTRDSPNALRSHVMEVESGTDVAESIAQFSRRRQRGVCVMSASGTVMNVTLRQPTAPGSVMALQGRFEILSLTGAFLPGPAPPGSTGLTIYLAGGQGQVVGGSVVGSLVASGPVMVIAATFSNATYERLPVEEEEEADSVVQAGGMGGGGSPPPPPLEMGGGGGGGMGDPMPGY...

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_021534`
TK1151 ID	TkA05G402640
OH-1004 ID	LXL04_021534
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	89.900
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

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_021534

Location Chr04:131922109-131922975 (-)

Description Similar to AHL20: AT-hook motif nuclear-localized protein 20

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g14465`	Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs) (By similarity).	Overexpression of AHL20 negatively regulates defenses in Arabidopsis.2010 · DOI: 10.1111/j.1744-7909.2010.00969.x
`At3g04570`	Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs) (By similarity).	Overexpression of AHL20 negatively regulates defenses in Arabidopsis.2010 · DOI: 10.1111/j.1744-7909.2010.00969.x The Arabidopsis thaliana DNA-binding protein AHL19 mediates verticillium wilt resistance.2011 · DOI: 10.1094/mpmi-04-11-0090
`At4g22810`	Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs).	No verified direct reference in this release
`At2g35270`	Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs).	No verified direct reference in this release
`At2g42940`	Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs).	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_021534 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0010208 pollen wall assembly Biological Process

GO:0010228 vegetative to reproductive phase transition of meristem Biological Process

GO:0040029 epigenetic regulation of gene expression Biological Process

GO:0042742 defense response to bacterium Biological Process

GO:0045087 innate immune response Biological Process

GO:0045824 negative regulation of innate immune response Biological Process

GO:0045892 negative regulation of DNA-templated transcription Biological Process

GO:0048440 carpel development Biological Process

GO:0048653 anther development Biological Process

GO:0050832 defense response to fungus Biological Process

GO:0141005 transposable element silencing by heterochromatin formation Biological Process

KEGG gene cross-reference

ath:AT2G35270

ath:AT2G42940

ath:AT3G04570

ath:AT4G14465

ath:AT4G22810

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.

Nucleus0.961

Rank 1 · LXL04_021534 · OH-1004

Cytoplasm0.097

Rank 2 · LXL04_021534 · OH-1004

Cell membrane0.036

Rank 3 · LXL04_021534 · OH-1004

Endoplasmic reticulum0.025

Rank 4 · LXL04_021534 · OH-1004

Plastid0.012

Rank 5 · LXL04_021534 · 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.

PF03479.22PCC90-207 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_021534	`PF03479.22`	PCC	90	207	2.1e-32	112.4

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
`Q8GWQ2`	Arabidopsis thaliana	AT-hook motif nuclear-localized protein 20	61.953%	Swiss-Prot	strong database homology
`Q9SR17`	Arabidopsis thaliana	AT-hook motif nuclear-localized protein 19	64.854%	Swiss-Prot	strong database homology
`O49662`	Arabidopsis thaliana	AT-hook motif nuclear-localized protein 24	55.212%	Swiss-Prot	strong database homology
`O82166`	Arabidopsis thaliana	AT-hook motif nuclear-localized protein 21	68.387%	Swiss-Prot	moderate database homology
`Q9SJG4`	Arabidopsis thaliana	AT-hook motif nuclear-localized protein 16	56.452%	Swiss-Prot	moderate database homology

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