LXL04_005820 | RubberDandelionOmics

Gene overview

LXL04_005820

Reference: OH-1004 Chr: Chr01 Coordinates: 174081838-174082707 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

870 bp · LXL04_005820|LXL04_005820|OH1004|cDNA

ATGGATCCTGCAACAAACTCTCTTCCACCTCCGTTTCATACAAGAAACTTCAATCTGCACCAATTCCAACAGCAAAATTCCGAAGACGAACAAAGCGGAACCAGTGGTCTCAACATGGGTGGCCACAAGATAGACCGTGAAGAGAAGAACAACGACGATATGTTGAACATCAGCGGCGGTGGTGGCAGCAGTGAAGGCAAAGACGGCGAAATGGGGAGGAGACCCAGAGGACGTCCATCAGGGTCAAAAAACAAACCTAA...

CDS

Download CDS FASTA

870 bp · LXL04_005820|LXL04_005820|OH1004|CDS

ATGGATCCTGCAACAAACTCTCTTCCACCTCCGTTTCATACAAGAAACTTCAATCTGCACCAATTCCAACAGCAAAATTCCGAAGACGAACAAAGCGGAACCAGTGGTCTCAACATGGGTGGCCACAAGATAGACCGTGAAGAGAAGAACAACGACGATATGTTGAACATCAGCGGCGGTGGTGGCAGCAGTGAAGGCAAAGACGGCGAAATGGGGAGGAGACCCAGAGGACGTCCATCAGGGTCAAAAAACAAACCTAA...

Protein

Download Protein FASTA

289 aa · LXL04_005820|LXL04_005820|OH1004|PROTEIN

MDPATNSLPPPFHTRNFNLHQFQQQNSEDEQSGTSGLNMGGHKIDREEKNNDDMLNISGGGGSSEGKDGEMGRRPRGRPSGSKNKPKPPIIITRDSANALRTHVMEVSDGCDVMDSISTFARRRQRGVCIISGTGSVTNVTLRQPASPGAVVTLHGRFEILSLSGSFLPPPAPPAATGLTIYLAGGQGQVVGGSVVGALLAAGAVVIMAASFSNAAYERLPLEDEESTLPIQGGSLGSPGAITPPSSQQQQQLMGDPSLF...

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_005820`
TK1151 ID	TkA01G014540
OH-1004 ID	LXL04_005820
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_005820

Location Chr01:174081838-174082707 (+)

Description Similar to AHL24: AT-hook motif nuclear-localized protein 24

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g22810`	Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs).	No verified direct reference in this release
`At3g60870`	Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs) (By similarity).	Over-expression of an AT-hook gene, AHL22, delays flowering and inhibits the elongation of the hypocotyl in Arabidopsis thaliana.2009 · DOI: 10.1007/s11103-009-9507-9
`At2g45430`	Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs).	Over-expression of an AT-hook gene, AHL22, delays flowering and inhibits the elongation of the hypocotyl in Arabidopsis thaliana.2009 · DOI: 10.1007/s11103-009-9507-9 The AT-hook motif-containing protein AHL22 regulates flowering initiation by modifying FLOWERING LOCUS T chromatin in Arabidopsis.2012 · DOI: 10.1074/jbc.m111.318477
`At4g12050`	Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs).	No verified direct reference in this release
`At2g35270`	Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs).	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_005820 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0009640 photomorphogenesis Biological Process

GO:0009647 skotomorphogenesis 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:0048364 root development Biological Process

GO:0048440 carpel development Biological Process

GO:0048653 anther development Biological Process

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0005737 cytoplasm Cellular Component

KEGG gene cross-reference

ath:AT2G35270

ath:AT2G45430

ath:AT3G60870

ath:AT4G12050

ath:AT4G22810

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.

Nucleus0.968

Rank 1 · LXL04_005820 · OH-1004

Cytoplasm0.099

Rank 2 · LXL04_005820 · OH-1004

Cell membrane0.027

Rank 3 · LXL04_005820 · OH-1004

Endoplasmic reticulum0.018

Rank 4 · LXL04_005820 · OH-1004

Plastid0.012

Rank 5 · LXL04_005820 · 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.

PF03479.22PCC95-212 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_005820	`PF03479.22`	PCC	95	212	2.8e-35	121.7

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`O49662`	Arabidopsis thaliana	AT-hook motif nuclear-localized protein 24	56.456%	Swiss-Prot	strong database homology
`Q9LZX7`	Arabidopsis thaliana	AT-hook motif nuclear-localized protein 18	53.898%	Swiss-Prot	strong database homology
`O22130`	Arabidopsis thaliana	AT-hook motif nuclear-localized protein 22	56.563%	Swiss-Prot	strong database homology
`Q9SZ70`	Arabidopsis thaliana	AT-hook motif nuclear-localized protein 26	56.105%	Swiss-Prot	strong database homology
`O82166`	Arabidopsis thaliana	AT-hook motif nuclear-localized protein 21	73.248%	Swiss-Prot	moderate database homology

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