LXL04_029502 | RubberDandelionOmics

Gene overview

LXL04_029502

Reference: OH-1004 Chr: Chr06 Coordinates: 92463885-92467891 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1782 bp · LXL04_029502|LXL04_029502|OH1004|cDNA

ATGGAGAATCGAGAGTCAACTTTTCTCTCATCTGAAGACCTGCTGTATAAGGAGCTATGGAAGGCATGTACGGGCCCACTAGTGGACGTTCCAAGAGATGGAGAGAGAGTTTTCTACTTTCCTCAAGGCCACATGGAACAATTAGAGGCATCAACAAATCAGGAACTGAATCAGAGGATTCCTCTCTTCAATCTCAAATCAAAGATCCTTTGTCGCGTTGTTCATACTCAGTTACTGGCCGAACAAGAAACTGATGATGT...

CDS

Download CDS FASTA

1782 bp · LXL04_029502|LXL04_029502|OH1004|CDS

ATGGAGAATCGAGAGTCAACTTTTCTCTCATCTGAAGACCTGCTGTATAAGGAGCTATGGAAGGCATGTACGGGCCCACTAGTGGACGTTCCAAGAGATGGAGAGAGAGTTTTCTACTTTCCTCAAGGCCACATGGAACAATTAGAGGCATCAACAAATCAGGAACTGAATCAGAGGATTCCTCTCTTCAATCTCAAATCAAAGATCCTTTGTCGCGTTGTTCATACTCAGTTACTGGCCGAACAAGAAACTGATGATGT...

Protein

Download Protein FASTA

593 aa · LXL04_029502|LXL04_029502|OH1004|PROTEIN

MENRESTFLSSEDLLYKELWKACTGPLVDVPRDGERVFYFPQGHMEQLEASTNQELNQRIPLFNLKSKILCRVVHTQLLAEQETDDVYAQITLLPEQNQGDSDPTCPVEPLEEPQRPNVHSFCKVLTASDTSTHGGFSVLRKHANECLPPLDMTQATPTQELVAKDLHGTEWRFKHIFRETLSDFDFDFDFDFDFDFDLTGQPRRHLLTTGWSTFVTCKRLVAGDSFVFLRGENGELRVGVRRFARQQSSMPSSVISSQS...

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_029502`
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_029502

Location Chr06:92463885-92467891 (-)

Description Similar to ARF11: Auxin response factor 11

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g46530`	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
`At3g61830`	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
`At4g23980`	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
`At1g59750`	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
`At1g34410`	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

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_029502 · 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:0008219 cell death Biological Process

GO:0009733 response to auxin Biological Process

GO:0009734 auxin-activated signaling pathway Biological Process

GO:0010150 leaf senescence Biological Process

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

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0003677 DNA binding Molecular Function

KEGG gene cross-reference

ath:AT1G34410

ath:AT1G59750

ath:AT2G46530

ath:AT3G61830

ath:AT4G23980

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.

Nucleus0.951

Rank 1 · LXL04_029502 · OH-1004

Cytoplasm0.108

Rank 2 · LXL04_029502 · OH-1004

Cell membrane0.032

Rank 3 · LXL04_029502 · OH-1004

Endoplasmic reticulum0.020

Rank 4 · LXL04_029502 · OH-1004

Plastid0.017

Rank 5 · LXL04_029502 · 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.

PF02362.27B3122-181 aa

PF02362.27B3196-243 aa

PF25313.2BRWD_AD271-371 aa

PF06507.20ARF_AD290-371 aa

PF02309.23AUX_IAA470-516 aa

PF02309.23AUX_IAA526-563 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_029502	`PF02362.27`	B3	122	181	2e-19	70.1
LXL04_029502	`PF02362.27`	B3	196	243	2e-19	70.1
LXL04_029502	`PF25313.2`	BRWD_AD	271	371	1.2e-13	52.2
LXL04_029502	`PF06507.20`	ARF_AD	290	371	1.5e-35	121.6
LXL04_029502	`PF02309.23`	AUX_IAA	470	516	2.5e-13	51.1
LXL04_029502	`PF02309.23`	AUX_IAA	526	563	2.5e-13	51.1

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
`Q9ZPY6`	Arabidopsis thaliana	Auxin response factor 11	58.151%	Swiss-Prot	strong database homology
`Q9C5W9`	Arabidopsis thaliana	Auxin response factor 18	58.143%	Swiss-Prot	strong database homology
`Q9XED8`	Arabidopsis thaliana	Auxin response factor 9	56.329%	Swiss-Prot	strong database homology
`Q8L7G0`	Arabidopsis thaliana	Auxin response factor 1	49.531%	Swiss-Prot	moderate database homology
`Q9C8N9`	Arabidopsis thaliana	Putative auxin response factor 21	45.799%	Swiss-Prot	moderate database homology

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