LXL04_002726 | RubberDandelionOmics

Gene overview

LXL04_002726

Reference: OH-1004 Chr: Chr01 Coordinates: 56332534-56338386 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2766 bp · LXL04_002726|LXL04_002726|OH1004|cDNA

ATGAGAAGAGGTGGGGAGGTGATATATTCAAGTAAATTTACTATCCATCTTTACAAAGAGTGTTCGGTGCGGGACAGACTATCCGTTGAAGTTGAGTCATGGCAGAGAAGAAGACAGATTAGAGATGGTAGAGAGAGAACCGAAGAAATAGACATGAAGAACTTCATTCAAACGCGACAGCTCGAAGACGGTAGTAGGGATCGGTGGATTTTTAAAGGAGCCTCGAAAGGAATTCTATCCTCGGCGTGGATTAGAGGAAG...

CDS

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2766 bp · LXL04_002726|LXL04_002726|OH1004|CDS

ATGAGAAGAGGTGGGGAGGTGATATATTCAAGTAAATTTACTATCCATCTTTACAAAGAGTGTTCGGTGCGGGACAGACTATCCGTTGAAGTTGAGTCATGGCAGAGAAGAAGACAGATTAGAGATGGTAGAGAGAGAACCGAAGAAATAGACATGAAGAACTTCATTCAAACGCGACAGCTCGAAGACGGTAGTAGGGATCGGTGGATTTTTAAAGGAGCCTCGAAAGGAATTCTATCCTCGGCGTGGATTAGAGGAAG...

Protein

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921 aa · LXL04_002726|LXL04_002726|OH1004|PROTEIN

MRRGGEVIYSSKFTIHLYKECSVRDRLSVEVESWQRRRQIRDGRERTEEIDMKNFIQTRQLEDGSRDRWIFKGASKGILSSAWIRGRMDLCKSVGKIFKNEWINWIPIKENIFVWKILKGRMAVRKTLAEMDIDILSTKCEVCNDFVEDIDHLFFKCDLASWLWSRLGLWINSSIPSFESLHDCFAWVDRVYKPSVSNKIVKILVVVLLKSIWIHRNDIMFNDKRVEKEYAATWILSVFHRTQCSTITVVMETVPMESNA...

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_002726`
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_002726

Location Chr01:56332534-56338386 (+)

Description Similar to HAT: Zinc finger BED domain-containing protein DAYSLEEPER

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g42170`	Transposase-like protein that is essential for plant growth and development.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0733400`	Transposase-like protein that is essential for plant growth and development.	No verified direct reference in this release
`Os05g0239150`	Transposase-like protein that is essential for plant growth and development.	No verified direct reference in this release
`Os05g0583200`	Transposase-like protein that is essential for plant growth and development.	No verified direct reference in this release
`Os01g0518400`	Transposase-like protein that is essential for plant growth and development.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_002726 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0009791 post-embryonic development Biological Process

GO:0005634 nucleus Cellular Component

GO:0005829 cytosol Cellular Component

GO:0003677 DNA binding Molecular Function

GO:0008270 zinc ion binding Molecular Function

GO:0046983 protein dimerization activity Molecular Function

KEGG gene cross-reference

ath:AT3G42170

dosa:Os01g0518400

dosa:Os03g0733400

dosa:Os05g0239150

dosa:Os05g0583200

osa:4339741

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.

Nucleus0.944

Rank 1 · LXL04_002726 · OH-1004

Cytoplasm0.089

Rank 2 · LXL04_002726 · OH-1004

Cell membrane0.020

Rank 3 · LXL04_002726 · OH-1004

Plastid0.014

Rank 4 · LXL04_002726 · OH-1004

Endoplasmic reticulum0.012

Rank 5 · LXL04_002726 · 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.

PF13966.12zf-RVT96-164 aa

PF27041.1ZBED1_RNase-like456-551 aa

PF27039.1ZBED1_RNase-like_helical555-664 aa

PF14372.13hAT-like_RNase-H684-775 aa

PF05699.20Dimer_Tnp_hAT826-903 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_002726	`PF13966.12`	zf-RVT	96	164	5.9e-13	50.0
LXL04_002726	`PF27041.1`	ZBED1_RNase-like	456	551	4.6e-25	88.3
LXL04_002726	`PF27039.1`	ZBED1_RNase-like_helical	555	664	6.1e-35	120.3
LXL04_002726	`PF14372.13`	hAT-like_RNase-H	684	775	1.3e-31	109.4
LXL04_002726	`PF05699.20`	Dimer_Tnp_hAT	826	903	6.7e-22	77.8

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
`Q9M2N5`	Arabidopsis thaliana	Zinc finger BED domain-containing protein DAYSLEEPER	52.345%	Swiss-Prot	strong database homology
`Q6AVI0`	Oryza sativa subsp. japonica	Zinc finger BED domain-containing protein RICESLEEPER 2	46.256%	Swiss-Prot	moderate database homology
`B9FJG3`	Oryza sativa subsp. japonica	Zinc finger BED domain-containing protein RICESLEEPER 1	47.344%	Swiss-Prot	moderate database homology
`Q75HY5`	Oryza sativa subsp. japonica	Zinc finger BED domain-containing protein RICESLEEPER 3	44.737%	Swiss-Prot	moderate database homology
`Q0JMB2`	Oryza sativa subsp. japonica	Zinc finger BED domain-containing protein RICESLEEPER 4	40.832%	Swiss-Prot	moderate database homology

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