LXL04_036922 | RubberDandelionOmics

Gene overview

LXL04_036922

Reference: OH-1004 Chr: Chr08 Coordinates: 50122067-50122723 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

549 bp · LXL04_036922|LXL04_036922|OH1004|cDNA

ATGGATCTAATCAATTTCGAAGCAACCGAGCTAAGGTTAGGATTGCCGGGAACAATCGACGACTTGCCGGAGACAAAACCAGCACAAAATTATCCGGTGAATACCAACAAAAGAAGCTCATCGGAGATGGATTCAAGTATCACCGACGAAAACGATTCATCAAGATCTCCCCCACCATCCAAGGCACAAGTTGTAGGGTGGCCGCCGGTGAGATCTTACCGGAAAAACGTACTTCAAGTGAGTAAAACCAAATCCGAGGT...

CDS

Download CDS FASTA

549 bp · LXL04_036922|LXL04_036922|OH1004|CDS

ATGGATCTAATCAATTTCGAAGCAACCGAGCTAAGGTTAGGATTGCCGGGAACAATCGACGACTTGCCGGAGACAAAACCAGCACAAAATTATCCGGTGAATACCAACAAAAGAAGCTCATCGGAGATGGATTCAAGTATCACCGACGAAAACGATTCATCAAGATCTCCCCCACCATCCAAGGCACAAGTTGTAGGGTGGCCGCCGGTGAGATCTTACCGGAAAAACGTACTTCAAGTGAGTAAAACCAAATCCGAGGT...

Protein

Download Protein FASTA

182 aa · LXL04_036922|LXL04_036922|OH1004|PROTEIN

MDLINFEATELRLGLPGTIDDLPETKPAQNYPVNTNKRSSSEMDSSITDENDSSRSPPPSKAQVVGWPPVRSYRKNVLQVSKTKSEVGSGIYVKVSMDGAPYLRKVDLKVYKNYGELTKGLQEMFKCIIGLYSEREGYKSEHAPTYEDKDGDWMLVGDVPWDMFLTSCRRIRIMRGCEVMES

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_036922`
TK1151 ID	TkA04G017490
OH-1004 ID	LXL04_036922
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_036922

Location Chr08:50122067-50122723 (+)

Description Similar to AUX22D: Auxin-induced protein 22D

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g04240`	Aux/IAA proteins are short-lived transcriptional factors that function as repressors of early auxin response genes at low auxin concentrations.	Arabidopsis SHY2/IAA3 inhibits auxin-regulated gene expression.2002 · DOI: 10.1105/tpc.010283 Regulation of Arabidopsis SHY2/IAA3 protein turnover.2003 · DOI: 10.1046/j.1365-313x.2003.01909.x A genetic framework for the control of cell division and differentiation in the root meristem.2008 · DOI: 10.1126/science.1164147 The rate of cell differentiation controls the Arabidopsis root meristem growth phase.2010 · DOI: 10.1016/j.cub.2010.05.035 Spatio-temporal sequence of cross-regulatory events in root meristem growth.2010 · DOI: 10.1073/pnas.1014716108 Strigolactone signaling in the endodermis is sufficient to restore root responses and involves SHORT HYPOCOTYL 2 (SHY2) activity.2013 · DOI: 10.1111/nph.12189 Control of auxin-regulated root development by the Arabidopsis thaliana SHY2/IAA3 gene.1999 · DOI: 10.1242/dev.126.4.711

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_036922 · 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:0000976 transcription cis-regulatory region binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0042802 identical protein binding Molecular Function

KEGG gene cross-reference

ath:AT1G04240

vra:106757071

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

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.

Nucleus0.792

Rank 1 · LXL04_036922 · OH-1004

Cytoplasm0.247

Rank 2 · LXL04_036922 · OH-1004

Cell membrane0.081

Rank 3 · LXL04_036922 · OH-1004

Endoplasmic reticulum0.034

Rank 4 · LXL04_036922 · OH-1004

Plastid0.018

Rank 5 · LXL04_036922 · 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.

PF02309.23AUX_IAA8-179 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_036922	`PF02309.23`	AUX_IAA	8	179	5.4e-56	190.6

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
`Q38822`	Arabidopsis thaliana	Auxin-responsive protein IAA3	57.459%	Swiss-Prot	strong database homology

JBrowse

View in Genome Browser

Gene Card