LXL04_005648 | RubberDandelionOmics

Gene overview

LXL04_005648

Reference: OH-1004 Chr: Chr01 Coordinates: 169994310-169997571 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

654 bp · LXL04_005648|LXL04_005648|OH1004|cDNA

ATGGAGGGATACCCTAAATCGAAGAAGGTGATGATCAAAGAAGCTTGTGAGGAGACAAGGCTTGAACTTAGGCTATGTCCTCCTGGAGATGGCCTTTACTCTATTAGTACAACTCATGCTACTAATAGTTCATCAAAGACGCTCATGTTTAAGAGCTCCACTAAAAGGGTTGCACAGCCACCGGCAGTGGTGGGATGGCCACCGGTGAGATCATCAAGAAAGAACATTATGACATCTAGCAACTCCACCAAGGTGGCATC...

CDS

Download CDS FASTA

654 bp · LXL04_005648|LXL04_005648|OH1004|CDS

ATGGAGGGATACCCTAAATCGAAGAAGGTGATGATCAAAGAAGCTTGTGAGGAGACAAGGCTTGAACTTAGGCTATGTCCTCCTGGAGATGGCCTTTACTCTATTAGTACAACTCATGCTACTAATAGTTCATCAAAGACGCTCATGTTTAAGAGCTCCACTAAAAGGGTTGCACAGCCACCGGCAGTGGTGGGATGGCCACCGGTGAGATCATCAAGAAAGAACATTATGACATCTAGCAACTCCACCAAGGTGGCATC...

Protein

Download Protein FASTA

217 aa · LXL04_005648|LXL04_005648|OH1004|PROTEIN

MEGYPKSKKVMIKEACEETRLELRLCPPGDGLYSISTTHATNSSSKTLMFKSSTKRVAQPPAVVGWPPVRSSRKNIMTSSNSTKVASLPEKDPIDGSGGKKISSHHETSLYVKINMDGVAIGRKVDLKAYDNYQRLFSAVDELFRGLLAAQGDTSSGTKTETIGLLDGNGEYTLVYEDNEGDRILVGDIPWDMFISSVKRLRMLKTSELSVFCYQDD

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_005648`
TK1151 ID	TkA01G028000
OH-1004 ID	LXL04_005648
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	97.700
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_005648

Location Chr01:169994310-169997571 (-)

Description Similar to IAA26: Auxin-responsive protein IAA26

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g16500`	Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations.	No verified direct reference in this release
`At1g51950`	Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0228900`	Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations.	No verified direct reference in this release
`Os05g0186900`	Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations.	No verified direct reference in this release
`Os05g0523300`	Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_005648 · 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:0009733 response to auxin Biological Process

GO:0009734 auxin-activated signaling pathway Biological Process

GO:0005634 nucleus Cellular Component

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0042802 identical protein binding Molecular Function

KEGG gene cross-reference

ath:AT1G51950

ath:AT3G16500

dosa:Os02g0228900

dosa:Os05g0523300

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.

Nucleus0.906

Rank 1 · LXL04_005648 · OH-1004

Cytoplasm0.151

Rank 2 · LXL04_005648 · OH-1004

Cell membrane0.058

Rank 3 · LXL04_005648 · OH-1004

Endoplasmic reticulum0.030

Rank 4 · LXL04_005648 · OH-1004

Plastid0.016

Rank 5 · LXL04_005648 · 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_IAA41-209 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_005648	`PF02309.23`	AUX_IAA	41	209	1.3e-54	186.0

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
`Q8LAL2`	Arabidopsis thaliana	Auxin-responsive protein IAA26	47.534%	Swiss-Prot	moderate database homology
`O24408`	Arabidopsis thaliana	Auxin-responsive protein IAA18	47.511%	Swiss-Prot	moderate database homology
`Q6H543`	Oryza sativa subsp. japonica	Auxin-responsive protein IAA7	57.325%	Swiss-Prot	moderate database homology
`P0C127`	Oryza sativa subsp. japonica	Auxin-responsive protein IAA16	45.794%	Swiss-Prot	moderate database homology
`Q5W670`	Oryza sativa subsp. japonica	Auxin-responsive protein IAA18	53.205%	Swiss-Prot	moderate database homology

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