LXL04_033560 | RubberDandelionOmics

Gene overview

LXL04_033560

Reference: OH-1004 Chr: Chr07 Coordinates: 47615688-47616395 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

555 bp · LXL04_033560|LXL04_033560|OH1004|cDNA

ATGCTTGAATCGCCCCTAGCTCAAAACGAGGTCAAGAAGCCACAAGACGGGAGTTGTAAAATATTCGGGGTACCCCTTGCTGGTAACACAGCTGTAGTTGCCTCACCTAAAGATCGAGAAAAACaatatcaaaatcaaaatcCTCAGCTACAAGCTAAAGTCGGAAGTTCAACAAGGAGTTGTACGAAGGTCCATAAACAAGGGATAGCGCGTGGGAGGTCTCTGGATCTTACGAAATTCAACAACTACGACGAATTAAT...

CDS

Download CDS FASTA

555 bp · LXL04_033560|LXL04_033560|OH1004|CDS

ATGCTTGAATCGCCCCTAGCTCAAAACGAGGTCAAGAAGCCACAAGACGGGAGTTGTAAAATATTCGGGGTACCCCTTGCTGGTAACACAGCTGTAGTTGCCTCACCTAAAGATCGAGAAAAACAATATCAAAATCAAAATCCTCAGCTACAAGCTAAAGTCGGAAGTTCAACAAGGAGTTGTACGAAGGTCCATAAACAAGGGATAGCGCGTGGGAGGTCTCTGGATCTTACGAAATTCAACAACTACGACGAATTAAT...

Protein

Download Protein FASTA

184 aa · LXL04_033560|LXL04_033560|OH1004|PROTEIN

MLESPLAQNEVKKPQDGSCKIFGVPLAGNTAVVASPKDREKQYQNQNPQLQAKVGSSTRSCTKVHKQGIARGRSLDLTKFNNYDELIAELDELFEFNGELKTRNKSWLVVYTDDEGDMMLVGDDPWQEFCGMVRKIFIYTGVEVQRMNLGALNSRGDNTSSVAEGMDTRETQTNPPSSSSPEHA

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_033560`
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_033560

Location Chr07:47615688-47616395 (+)

Description Similar to ARF2A: Auxin response factor 2A

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g62000`	Auxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs).	AUXIN RESPONSE FACTOR 2 (ARF2): a pleiotropic developmental regulator.2005 · DOI: 10.1111/j.1365-313x.2005.02426.x AUXIN RESPONSE FACTOR1 and AUXIN RESPONSE FACTOR2 regulate senescence and floral organ abscission in Arabidopsis thaliana.2005 · DOI: 10.1242/dev.02012 The AUXIN RESPONSE FACTOR 2 gene of Arabidopsis links auxin signalling, cell division, and the size of seeds and other organs.2006 · DOI: 10.1242/dev.02194

Rice

Reference gene ID	Possible function	Papers / DOI
`Os11g0523800`	Auxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs).	No verified direct reference in this release
`UniProt: A2ZET6`	Auxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs).	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_033560 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0008285 negative regulation of cell population proliferation Biological Process

GO:0009734 auxin-activated signaling pathway Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0009835 fruit ripening Biological Process

GO:0009836 fruit ripening, climacteric Biological Process

GO:0009911 positive regulation of flower development Biological Process

GO:0010047 fruit dehiscence Biological Process

GO:0010150 leaf senescence Biological Process

GO:0010227 floral organ abscission Biological Process

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

KEGG gene cross-reference

ath:AT5G62000

dosa:Os11g0523800

sly:778240

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.

Nucleus0.544

Rank 1 · LXL04_033560 · OH-1004

Cytoplasm0.418

Rank 2 · LXL04_033560 · OH-1004

Cell membrane0.203

Rank 3 · LXL04_033560 · OH-1004

Endoplasmic reticulum0.058

Rank 4 · LXL04_033560 · OH-1004

Golgi apparatus0.024

Rank 5 · LXL04_033560 · 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.

PF02309.23AUX_IAA42-95 aa

PF02309.23AUX_IAA105-144 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_033560	`PF02309.23`	AUX_IAA	42	95	7.6e-14	52.8
LXL04_033560	`PF02309.23`	AUX_IAA	105	144	7.6e-14	52.8

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q94JM3`	Arabidopsis thaliana	Auxin response factor 2	48.372%	Swiss-Prot	moderate database homology
`Q2R3F5`	Oryza sativa subsp. japonica	Auxin response factor 23	73.832%	Swiss-Prot	moderate database homology
`A2ZET6`	Oryza sativa subsp. indica	Auxin response factor 23	73.832%	Swiss-Prot	moderate database homology

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