LXL04_002891 | RubberDandelionOmics

Gene overview

LXL04_002891

Reference: OH-1004 Chr: Chr01 Coordinates: 60573013-60580230 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3642 bp · LXL04_002891|LXL04_002891|OH1004|cDNA

ATGCATATCGACGCGAGGAAATTTGTTGGTCCAAGCTTATACCCCTTAATATTCGGTGTTGGCCTGTTGGGTATGGAGGGCTTCAGTGGGCAGAATTGCAGTTGCAGACACGTAAGAGCAAGGGGAATAACCACGGTCAATCTTATATGTCAGCTGTGCGGGACCGATCCTGAAACAGTAGACCATTTACTTGCAACCTGTGATTTCTCCAGAGAGGTATGTGGCTGGATTTTCATGTGGCTTGGCATGCCTGCTAAACA...

CDS

Download CDS FASTA

3642 bp · LXL04_002891|LXL04_002891|OH1004|CDS

ATGCATATCGACGCGAGGAAATTTGTTGGTCCAAGCTTATACCCCTTAATATTCGGTGTTGGCCTGTTGGGTATGGAGGGCTTCAGTGGGCAGAATTGCAGTTGCAGACACGTAAGAGCAAGGGGAATAACCACGGTCAATCTTATATGTCAGCTGTGCGGGACCGATCCTGAAACAGTAGACCATTTACTTGCAACCTGTGATTTCTCCAGAGAGGTATGTGGCTGGATTTTCATGTGGCTTGGCATGCCTGCTAAACA...

Protein

Download Protein FASTA

1213 aa · LXL04_002891|LXL04_002891|OH1004|PROTEIN

MHIDARKFVGPSLYPLIFGVGLLGMEGFSGQNCSCRHVRARGITTVNLICQLCGTDPETVDHLLATCDFSREVCGWIFMWLGMPAKQFNKVTEYLDHAASWGNCPRKRQSLNSIFYCLLWNIWLARNEVVFNKRRIPAVKVADNSHIHMYRENRYIMRAGLSTIQQTLTPEAATVLNHSIAEAGRRNHGQTTPLHVASTLLASPTGFLRQACIRSHPNSSHPLQCRALELCFSVALERLPTATSSPAVTEPPISNALMAA...

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_002891`
TK1151 ID	TkA01G413330
OH-1004 ID	LXL04_002891
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.800
Protein coverage (%)	TK1151 99.808 / OH-1004 85.655 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_002891

Location Chr01:60573013-60580230 (-)

Description Similar to SMAX1: Protein SUPPRESSOR OF MAX2 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g57710`	Probable component of a transcriptional corepressor complex that acts downstream of MAX2 to negatively regulate karrikins/strigolactone responses.	SUPPRESSOR OF MORE AXILLARY GROWTH2 1 controls seed germination and seedling development in Arabidopsis.2013 · DOI: 10.1104/pp.113.221259 SMAX1-LIKE/D53 Family Members Enable Distinct MAX2-Dependent Responses to Strigolactones and Karrikins in Arabidopsis.2015 · DOI: 10.1105/tpc.15.00562 Functional redundancy in the control of seedling growth by the karrikin signaling pathway.2016 · DOI: 10.1007/s00425-015-2458-2
`At4g30350`	Probable component of a transcriptional corepressor complex that acts specifically in the karrikin pathway.	Functional redundancy in the control of seedling growth by the karrikin signaling pathway.2016 · DOI: 10.1007/s00425-015-2458-2
`At5g57130`	May function in a transcriptional corepressor complex.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os08g0250900`	May act downstream of MAX2 to negatively regulate karrikins/strigolactone responses.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_002891 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0007623 circadian rhythm Biological Process

GO:0009845 seed germination Biological Process

GO:0080167 response to karrikin Biological Process

GO:0090351 seedling development Biological Process

GO:1902347 response to strigolactone Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005524 ATP binding Molecular Function

GO:0016887 ATP hydrolysis activity Molecular Function

GO:0044183 protein folding chaperone Molecular Function

KEGG gene cross-reference

ath:AT4G30350

ath:AT5G57710

dosa:Os08g0250900

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.

Nucleus0.820

Rank 1 · LXL04_002891 · OH-1004

Cytoplasm0.154

Rank 2 · LXL04_002891 · OH-1004

Cell membrane0.062

Rank 3 · LXL04_002891 · OH-1004

Endoplasmic reticulum0.042

Rank 4 · LXL04_002891 · OH-1004

Plastid0.042

Rank 5 · LXL04_002891 · 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.

PF02861.26Clp_N168-269 aa

PF23569.2NBD_SMAX1435-610 aa

PF07724.21AAA_2869-981 aa

PF26587.1AAA_lid_SMAX11096-1178 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_002891	`PF02861.26`	Clp_N	168	269	1.4e-07	32.5
LXL04_002891	`PF23569.2`	NBD_SMAX1	435	610	1.4e-32	113.9
LXL04_002891	`PF07724.21`	AAA_2	869	981	4.6e-09	37.2
LXL04_002891	`PF26587.1`	AAA_lid_SMAX1	1096	1178	4.5e-22	78.4

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
`Q9FHH2`	Arabidopsis thaliana	Protein SUPPRESSOR OF MAX2 1	49.547%	Swiss-Prot	moderate database homology
`Q9M0C5`	Arabidopsis thaliana	Protein SMAX1-LIKE 2	40.864%	Swiss-Prot	moderate database homology
`Q9LU73`	Arabidopsis thaliana	Protein SMAX1-LIKE 5	32.069%	Swiss-Prot	moderate database homology
`Q6Z517`	Oryza sativa subsp. japonica	Protein SMAX1-like	39.568%	Swiss-Prot	moderate database homology

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