LXL04_020199 | RubberDandelionOmics

Gene overview

LXL04_020199

Reference: OH-1004 Chr: Chr04 Coordinates: 55477265-55482118 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2094 bp · LXL04_020199|LXL04_020199|OH1004|cDNA

ATGACGGAATTCTCGATACACAAAACCCAACACTCGCTTCAGgAGATGGATAACACATTCAGTACCGATAATGTAAATTCTCACAGAGACAAAATCAATTCTCAAAATGCTGAAGAGGTAGATGCTCAAGCTCAAGTCAATGTAGAAGACAATGAGGAAGGCTCTTCCAAGAAAAGGAGATTAACATCTGATGTATGGAAAGATTTTGATAGAATCAAAAATAAAGATGGTAGCCAAAGTGCACAATGTATGCACTGTCG...

CDS

Download CDS FASTA

2094 bp · LXL04_020199|LXL04_020199|OH1004|CDS

ATGACGGAATTCTCGATACACAAAACCCAACACTCGCTTCAGGAGATGGATAACACATTCAGTACCGATAATGTAAATTCTCACAGAGACAAAATCAATTCTCAAAATGCTGAAGAGGTAGATGCTCAAGCTCAAGTCAATGTAGAAGACAATGAGGAAGGCTCTTCCAAGAAAAGGAGATTAACATCTGATGTATGGAAAGATTTTGATAGAATCAAAAATAAAGATGGTAGCCAAAGTGCACAATGTATGCACTGTCG...

Protein

Download Protein FASTA

697 aa · LXL04_020199|LXL04_020199|OH1004|PROTEIN

MTEFSIHKTQHSLQEMDNTFSTDNVNSHRDKINSQNAEEVDAQAQVNVEDNEEGSSKKRRLTSDVWKDFDRIKNKDGSQSAQCMHCRKLLVSGPNAGTTHLKNHLLRCNKRNRTDITQYMLTTKKNAFDSTVSVENFKFSEQKSRMDFAKMVIKHNYSFSMCEHEYFEYFVQGLQPKFHLKCRNTVKADILQVYKNEKENLYKYLETLPGRVSLTTDIWTSDHQNIGYICLTSHFIDADWILHSKILAYRCIEYPHDTET...

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_020199`
TK1151 ID	TkA01G624170
OH-1004 ID	LXL04_020199
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	74.900
Protein coverage (%)	TK1151 69.550 / OH-1004 28.981 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_020199

Location Chr04:55477265-55482118 (+)

Description Similar to Os03g0733400: Zinc finger BED domain-containing protein RICESLEEPER 2

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

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_020199 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006310 DNA recombination Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0009791 post-embryonic development Biological Process

GO:0032196 transposition 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: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.

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.

Nucleus0.933

Rank 1 · LXL04_020199 · OH-1004

Cytoplasm0.134

Rank 2 · LXL04_020199 · OH-1004

Mitochondrion0.030

Rank 3 · LXL04_020199 · OH-1004

Cell membrane0.013

Rank 4 · LXL04_020199 · OH-1004

Endoplasmic reticulum0.008

Rank 5 · LXL04_020199 · 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.

PF02892.22zf-BED63-108 aa

PF27041.1ZBED1_RNase-like215-311 aa

PF27039.1ZBED1_RNase-like_helical315-425 aa

PF14372.13hAT-like_RNase-H445-536 aa

PF05699.20Dimer_Tnp_hAT585-667 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_020199	`PF02892.22`	zf-BED	63	108	7.3e-07	29.8
LXL04_020199	`PF27041.1`	ZBED1_RNase-like	215	311	1.6e-26	93.0
LXL04_020199	`PF27039.1`	ZBED1_RNase-like_helical	315	425	2.4e-36	124.9
LXL04_020199	`PF14372.13`	hAT-like_RNase-H	445	536	3.2e-30	104.9
LXL04_020199	`PF05699.20`	Dimer_Tnp_hAT	585	667	3.8e-30	104.2

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	34.131%	Swiss-Prot	moderate database homology
`Q6AVI0`	Oryza sativa subsp. japonica	Zinc finger BED domain-containing protein RICESLEEPER 2	35.994%	Swiss-Prot	moderate database homology
`B9FJG3`	Oryza sativa subsp. japonica	Zinc finger BED domain-containing protein RICESLEEPER 1	36.145%	Swiss-Prot	moderate database homology
`Q75HY5`	Oryza sativa subsp. japonica	Zinc finger BED domain-containing protein RICESLEEPER 3	34.087%	Swiss-Prot	moderate database homology

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