LXL04_003307 | RubberDandelionOmics

Gene overview

LXL04_003307

Reference: OH-1004 Chr: Chr01 Coordinates: 74189695-74199131 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2550 bp · LXL04_003307|LXL04_003307|OH1004|cDNA

ATGTGGCACGTTCTCAAGGTTACGTTATTGTCACAAAACGATCAAAAGCGTTTCCCTCTTTGGAGAGGTCCTAATGAGTTTGAAAATCATCGTGTCATTACATTTGCACTTGTATACAACAATCACTATGTGATGGTACAGTTACAAGGAGAGTGCCCAATGCCTCCTATTTCGGTATTATGGACCCGCCACAAAACTCCGCCAACGACTTTATGGGAAACAATGTACAAGTCGCGTCTACAGTTCTATAAGCAATTCAA...

CDS

Download CDS FASTA

2550 bp · LXL04_003307|LXL04_003307|OH1004|CDS

ATGTGGCACGTTCTCAAGGTTACGTTATTGTCACAAAACGATCAAAAGCGTTTCCCTCTTTGGAGAGGTCCTAATGAGTTTGAAAATCATCGTGTCATTACATTTGCACTTGTATACAACAATCACTATGTGATGGTACAGTTACAAGGAGAGTGCCCAATGCCTCCTATTTCGGTATTATGGACCCGCCACAAAACTCCGCCAACGACTTTATGGGAAACAATGTACAAGTCGCGTCTACAGTTCTATAAGCAATTCAA...

Protein

Download Protein FASTA

849 aa · LXL04_003307|LXL04_003307|OH1004|PROTEIN

MWHVLKVTLLSQNDQKRFPLWRGPNEFENHRVITFALVYNNHYVMVQLQGECPMPPISVLWTRHKTPPTTLWETMYKSRLQFYKQFKPTERFRLSCFYSALLITEVSQIPFDSALTMKNLDDLKFEVGQLAETRTFVEGYRSAWFRCKIKDINLKKNRILPEYYDFPEKEITWTKIYELPDYGRKSKQIKEQLMVRPPYPPMFHKSEMPPVNSITEVCVVINGEWKVGDLVDWYEDDCYWCSRFLKILTDDKVQIQLPLP...

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_003307`
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_003307

Location Chr01:74189695-74199131 (-)

Description Protein of unknown function

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g28420`	Transcriptional regulator required for the maintenance of the plant vegetative phase.	Imitation Switch chromatin remodeling factors and their interacting RINGLET proteins act together in controlling the plant vegetative phase in Arabidopsis.2012 · DOI: 10.1111/j.1365-313x.2012.05074.x

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_003307 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0006357 regulation of transcription by RNA polymerase II Biological Process

GO:0009908 flower development Biological Process

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

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

GO:0048510 regulation of timing of transition from vegetative to reproductive phase Biological Process

GO:0005634 nucleus Cellular Component

GO:0031010 ISWI-type complex Cellular Component

GO:0003677 DNA binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

KEGG gene cross-reference

ath:AT1G28420

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.

Nucleus0.697

Rank 1 · LXL04_003307 · OH-1004

Cytoplasm0.318

Rank 2 · LXL04_003307 · OH-1004

Cell membrane0.055

Rank 3 · LXL04_003307 · OH-1004

Endoplasmic reticulum0.032

Rank 4 · LXL04_003307 · OH-1004

Mitochondrion0.023

Rank 5 · LXL04_003307 · 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.

PF05641.19Agenet128-200 aa

PF00046.36Homeodomain458-491 aa

PF05641.19Agenet527-569 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_003307	`PF05641.19`	Agenet	128	200	5.4e-17	62.7
LXL04_003307	`PF00046.36`	Homeodomain	458	491	1.8e-07	31.6
LXL04_003307	`PF05641.19`	Agenet	527	569	5.4e-17	62.7

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
`F4HY56`	Arabidopsis thaliana	Homeobox-DDT domain protein RLT1	63.415%	Swiss-Prot	weak database homology

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