LXL04_008205 | RubberDandelionOmics

Gene overview

LXL04_008205

Reference: OH-1004 Chr: Chr02 Coordinates: 92292843-92303320 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1479 bp · LXL04_008205|LXL04_008205|OH1004|cDNA

ATGGCAGAGGAGGAAACAGGAGTGTTTGGCTACGAAAAAATTGGCCGAGTGAACGTTTTGATTAGACTAGATCTAAACCGTGCAAAGATGGCAGTGGTTTCTGGTTTCGATATTGGAAGAGAAGATCCAGTGAAAGATGAGGATAATTTGCGTTTACAAGAAAATGATtctaaaaatACTACAATCTACTTCTGCTACATATGTGATCCGTATAttatttttctttacatatataaaaccTTCGTCCTTCCCTCTTCATC...

CDS

Download CDS FASTA

1479 bp · LXL04_008205|LXL04_008205|OH1004|CDS

ATGGCAGAGGAGGAAACAGGAGTGTTTGGCTACGAAAAAATTGGCCGAGTGAACGTTTTGATTAGACTAGATCTAAACCGTGCAAAGATGGCAGTGGTTTCTGGTTTCGATATTGGAAGAGAAGATCCAGTGAAAGATGAGGATAATTTGCGTTTACAAGAAAATGATTCTAAAAATACTACAATCTACTTCTGCTACATATGTGATCCGTATATTATTTTTCTTTACATATATAAAACCTTCGTCCTTCCCTCTTCATC...

Protein

Download Protein FASTA

492 aa · LXL04_008205|LXL04_008205|OH1004|PROTEIN

MAEEETGVFGYEKIGRVNVLIRLDLNRAKMAVVSGFDIGREDPVKDEDNLRLQENDSKNTTIYFCYICDPYIIFLYIYKTFVLPSSSSLTHNMPSFHKMENTSLLSLLQQTTRSRKPSKTGGGIFRMFKLLPMLTSGCKMVTMLGRPRKPLLTDNATTGTLFGYRRGRVSLAIQEDPHRLPVFVIELPMNSIAFQKEMASDIVRLSLESETTSRKKKVLEEFVWAVYCNGRKYGYSIRRKQMTDDEIHVMQSLRGVSMGA...

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_008205`
TK1151 ID	TkA03G287390
OH-1004 ID	LXL04_008205
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	99.400
Protein coverage (%)	TK1151 96.067 / OH-1004 34.756 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_008205

Location Chr02:92292843-92303320 (+)

Description Similar to MIZ1: Protein MIZU-KUSSEI 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g41660`	Plays a role in lateral root development by maintaining auxin levels.	A gene essential for hydrotropism in roots.2007 · DOI: 10.1073/pnas.0609929104 Hormonal regulation of lateral root development in Arabidopsis modulated by MIZ1 and requirement of GNOM activity for MIZ1 function.2011 · DOI: 10.1104/pp.111.186270 MIZ1, an essential protein for root hydrotropism, is associated with the cytoplasmic face of the endoplasmic reticulum membrane in Arabidopsis root cells.2012 · DOI: 10.1016/j.febslet.2012.01.008 Light and abscisic acid signalling are integrated by MIZ1 gene expression and regulate hydrotropic response in roots of Arabidopsis thaliana.2012 · DOI: 10.1111/j.1365-3040.2012.02493.x Overexpression of MIZU-KUSSEI1 enhances the root hydrotropic response by retaining cell viability under hydrostimulated conditions in Arabidopsis thaliana.2012 · DOI: 10.1093/pcp/pcs129

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_008205 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006508 proteolysis Biological Process

GO:0009658 chloroplast organization Biological Process

GO:0010274 hydrotropism Biological Process

GO:0015074 DNA integration Biological Process

GO:1901020 negative regulation of calcium ion transmembrane transporter activity Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005789 endoplasmic reticulum membrane Cellular Component

GO:0016020 membrane Cellular Component

GO:0032541 cortical endoplasmic reticulum Cellular Component

GO:0003676 nucleic acid binding Molecular Function

KEGG gene cross-reference

ath:AT2G41660

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.

Nucleus0.337

Rank 1 · LXL04_008205 · OH-1004

Cytoplasm0.323

Rank 2 · LXL04_008205 · OH-1004

Mitochondrion0.132

Rank 3 · LXL04_008205 · OH-1004

Cell membrane0.128

Rank 4 · LXL04_008205 · OH-1004

Endoplasmic reticulum0.114

Rank 5 · LXL04_008205 · 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.

PF04759.19DUF617158-314 aa

PF14223.15Retrotran_gag_2402-484 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_008205	`PF04759.19`	DUF617	158	314	3e-62	210.2
LXL04_008205	`PF14223.15`	Retrotran_gag_2	402	484	1.2e-12	48.6

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.

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Protein	Organism	Description	Identity	Database	Confidence
`O22227`	Arabidopsis thaliana	Protein MIZU-KUSSEI 1	42.771%	Swiss-Prot	weak database homology

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