LXL04_018874 | RubberDandelionOmics

Gene overview

LXL04_018874

Reference: OH-1004 Chr: Chr04 Coordinates: 19467063-19473774 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2910 bp · LXL04_018874|LXL04_018874|OH1004|cDNA

ATGGCGATATCGAACGTGAATCATCAGCTCGCTCTGGTAGTACCGTCGAGCACATCAACGTCGTATGAGGGGCTTTTGGAATCTCAGAAAGAACTATTGAGCAAACAGATCTCTGAGCTGCAAAACATCGTTTCAAGGCAATGCAAACTCACCGGCGTCAACCCTCTTTCTCAGGAAATGGCAGCTGGTGCTCTTTCAATTAAAATTGGGAAAAGACCCAGGGATCTCCTGAATCCAAAAGCAATAAAATACATGCAGTC...

CDS

Download CDS FASTA

2910 bp · LXL04_018874|LXL04_018874|OH1004|CDS

ATGGCGATATCGAACGTGAATCATCAGCTCGCTCTGGTAGTACCGTCGAGCACATCAACGTCGTATGAGGGGCTTTTGGAATCTCAGAAAGAACTATTGAGCAAACAGATCTCTGAGCTGCAAAACATCGTTTCAAGGCAATGCAAACTCACCGGCGTCAACCCTCTTTCTCAGGAAATGGCAGCTGGTGCTCTTTCAATTAAAATTGGGAAAAGACCCAGGGATCTCCTGAATCCAAAAGCAATAAAATACATGCAGTC...

Protein

Download Protein FASTA

969 aa · LXL04_018874|LXL04_018874|OH1004|PROTEIN

MAISNVNHQLALVVPSSTSTSYEGLLESQKELLSKQISELQNIVSRQCKLTGVNPLSQEMAAGALSIKIGKRPRDLLNPKAIKYMQSIFSVKDEISKKEIRVISAQFGLTATQVRDFFTSQRTRVRRFIRLSREKAAQSSENVQEQDGPLSSNVDPLNHPVPLNSVGPSSIEAPSCSTQDEVLPDTNESDKYFMANIFSLMRKEETFSGQVKLMEGILQIQNASVLYWFLTNGGVMILASWLSQAAIEEQTTVLHVILRV...

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_018874`
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_018874

Location Chr04:19467063-19473774 (+)

Description Similar to LD: Homeobox protein LUMINIDEPENDENS

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g02560`	Seems to play a role in the regulation of flowering time in the autonomous flowering pathway by repressing FLOWERING LOCUS C expression.	No verified direct reference in this release
`At1g19860`	Zinc finger CCCH domain-containing protein 6.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os04g0663200`	Zinc finger CCCH domain-containing protein 30.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_018874 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009908 flower development Biological Process

GO:0010228 vegetative to reproductive phase transition of meristem Biological Process

GO:0030154 cell differentiation Biological Process

GO:0005576 extracellular region Cellular Component

GO:0005634 nucleus Cellular Component

GO:0003677 DNA binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0008270 zinc ion binding Molecular Function

KEGG gene cross-reference

ath:AT1G19860

ath:AT4G02560

dosa:Os04g0663200

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.

Nucleus0.924

Rank 1 · LXL04_018874 · OH-1004

Cytoplasm0.189

Rank 2 · LXL04_018874 · OH-1004

Cell membrane0.025

Rank 3 · LXL04_018874 · OH-1004

Mitochondrion0.017

Rank 4 · LXL04_018874 · OH-1004

Endoplasmic reticulum0.013

Rank 5 · LXL04_018874 · 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.

PF28692.1LD_N18-70 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_018874	`PF28692.1`	LD_N	18	70	2.3e-28	98.5

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
`Q38796`	Arabidopsis thaliana	Homeobox protein LUMINIDEPENDENS	45.169%	Swiss-Prot	moderate database homology
`Q56XU4`	Arabidopsis thaliana	Zinc finger CCCH domain-containing protein 6	31.325%	Swiss-Prot	weak database homology
`Q7XM16`	Oryza sativa subsp. japonica	Zinc finger CCCH domain-containing protein 30	40.698%	Swiss-Prot	weak database homology

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