LXL04_037338 | RubberDandelionOmics

Gene overview

LXL04_037338

Reference: OH-1004 Chr: Chr09 Coordinates: 6441415-6451519 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2247 bp · LXL04_037338|LXL04_037338|OH1004|cDNA

ATGAAACTGTTGCATCAACCACATTCGGGATCAAATCAGGTGCTACTCAGACCACCCATTCATCTGCACCTTCGCCTTCTATTCCCTAATTTGGATGAAAGTGTTCTTAACCCAAAAGGCGGTTTATTTCCCGGACCTGATTCTAAAGCTGCTGATGTTGTTGCTAATCCTGAAGATGAAGAGAAGGAGCTAGAACATTGTTCTTTACAAGAAAAACTTGACAATGAGCTCAAAGAACTGGACAAATCTTCAAAACAAGA...

CDS

Download CDS FASTA

2247 bp · LXL04_037338|LXL04_037338|OH1004|CDS

ATGAAACTGTTGCATCAACCACATTCGGGATCAAATCAGGTGCTACTCAGACCACCCATTCATCTGCACCTTCGCCTTCTATTCCCTAATTTGGATGAAAGTGTTCTTAACCCAAAAGGCGGTTTATTTCCCGGACCTGATTCTAAAGCTGCTGATGTTGTTGCTAATCCTGAAGATGAAGAGAAGGAGCTAGAACATTGTTCTTTACAAGAAAAACTTGACAATGAGCTCAAAGAACTGGACAAATCTTCAAAACAAGA...

Protein

Download Protein FASTA

748 aa · LXL04_037338|LXL04_037338|OH1004|PROTEIN

MKLLHQPHSGSNQVLLRPPIHLHLRLLFPNLDESVLNPKGGLFPGPDSKAADVVANPEDEEKELEHCSLQEKLDNELKELDKSSKQERISILSCITQKPKFSIGYPSVSSQQLWKCTGYVPKKFNSQYREFPCVIHSVNQKKDDLKVVKDQNRKKNAKDDSQPHGDEGTGGGGGGGSPQKLTTNNALSYLKLVKDMFHDQREKYKMFLDVMKDFKAQSRETGEIGPLAPHADRDLESGEINEDDKTTMKLQKDHKRVSEN...

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_037338`
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_037338

Location Chr09:6441415-6451519 (+)

Description Similar to BIG: Auxin transport protein BIG

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g02260`	Required for auxin efflux and polar auxin transport (PAT) influencing auxin-mediated developmental responses (e.g. cell elongation, apical dominance, lateral root production, inflorescence architecture, general growth and development).	BIG: a calossin-like protein required for polar auxin transport in Arabidopsis.2001 · DOI: 10.1101/gad.905201 Mutations in the huge Arabidopsis gene BIG affect a range of hormone and light responses.2003 · DOI: 10.1046/j.1365-313x.2003.01779.x The auxin transport inhibitor response 3 (tir3) allele of BIG and auxin transport inhibitors affect the gibberellin status of Arabidopsis.2005 · DOI: 10.1111/j.1365-313x.2004.02287.x CRM1/BIG-mediated auxin action regulates Arabidopsis inflorescence development.2007 · DOI: 10.1093/pcp/pcm094 Arabidopsis mutants define downstream branches in the phototransduction pathway.1994 · DOI: 10.1101/gad.8.3.339 Reduced naphthylphthalamic acid binding in the tir3 mutant of Arabidopsis is associated with a reduction in polar auxin transport and diverse morphological defects.1997 · DOI: 10.1105/tpc.9.5.745
`At3g01320`	Acts as a transcriptional repressor.	PAH-domain-specific interactions of the Arabidopsis transcription coregulator SIN3-LIKE1 (SNL1) with telomere-binding protein 1 and ALWAYS EARLY2 Myb-DNA binding factors.2010 · DOI: 10.1016/j.jmb.2009.11.065
`At1g70060`	Acts as a transcriptional repressor.	No verified direct reference in this release
`At1g24190`	Acts as a transcriptional repressor.	Role of an Arabidopsis AP2/EREBP-type transcriptional repressor in abscisic acid and drought stress responses.2005 · DOI: 10.1105/tpc.105.033043

Rice

Reference gene ID	Possible function	Papers / DOI
`Os09g0247700`	Required for auxin efflux and polar auxin transport (PAT) influencing auxin-mediated developmental responses (e.g. cell elongation, apical dominance, lateral root production, inflorescence architecture, general growth and development) (By similarity).	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_037338 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000122 negative regulation of transcription by RNA polymerase II Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0009620 response to fungus Biological Process

GO:0009640 photomorphogenesis Biological Process

GO:0009733 response to auxin Biological Process

GO:0009734 auxin-activated signaling pathway Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0009826 unidimensional cell growth Biological Process

GO:0009926 auxin polar transport Biological Process

GO:0010311 lateral root formation Biological Process

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

GO:0048281 inflorescence morphogenesis Biological Process

KEGG gene cross-reference

ath:AT1G24190

ath:AT1G70060

ath:AT3G01320

ath:AT3G02260

dosa:Os09g0247700

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.

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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.

Nucleus0.509

Rank 1 · LXL04_037338 · OH-1004

Cytoplasm0.345

Rank 2 · LXL04_037338 · OH-1004

Cell membrane0.128

Rank 3 · LXL04_037338 · OH-1004

Endoplasmic reticulum0.088

Rank 4 · LXL04_037338 · OH-1004

Mitochondrion0.077

Rank 5 · LXL04_037338 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

No result was found for this query.

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
`Q9SRU2`	Arabidopsis thaliana	Auxin transport protein BIG	86.842%	Swiss-Prot	weak database homology
`Q9SRH9`	Arabidopsis thaliana	Paired amphipathic helix protein Sin3-like 1	75.000%	Swiss-Prot	weak database homology
`O04539`	Arabidopsis thaliana	Paired amphipathic helix protein Sin3-like 4	68.750%	Swiss-Prot	weak database homology
`O48686`	Arabidopsis thaliana	Paired amphipathic helix protein Sin3-like 3	64.706%	Swiss-Prot	weak database homology
`B9G2A8`	Oryza sativa subsp. japonica	Auxin transport protein BIG	86.486%	Swiss-Prot	weak database homology

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