LXL04_025383 | RubberDandelionOmics

Gene overview

LXL04_025383

Reference: OH-1004 Chr: Chr05 Coordinates: 110890783-110892490 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1461 bp · LXL04_025383|LXL04_025383|OH1004|cDNA

ATGAGTGAATCCGAGGAAGGCAACCAAAGGCTACAATCTTCATTTGGTGCTTCATCATCATCACTCCCTAAACTGCAATCACATATTCCTTTCAATCATCCTGATATTCGTGCCCAAATTACACAATCTCCCCTAAATATCAACACTGAAAACACCAGTAAAAGAGTCGGAATGCCTCATTCGCATACACAAATCCCTCCGCTTTCACCTTCCTCACAGATCCCCGTCGGCAATTTTCAGCAAACGGAGAGTTCACATAA...

CDS

Download CDS FASTA

1461 bp · LXL04_025383|LXL04_025383|OH1004|CDS

ATGAGTGAATCCGAGGAAGGCAACCAAAGGCTACAATCTTCATTTGGTGCTTCATCATCATCACTCCCTAAACTGCAATCACATATTCCTTTCAATCATCCTGATATTCGTGCCCAAATTACACAATCTCCCCTAAATATCAACACTGAAAACACCAGTAAAAGAGTCGGAATGCCTCATTCGCATACACAAATCCCTCCGCTTTCACCTTCCTCACAGATCCCCGTCGGCAATTTTCAGCAAACGGAGAGTTCACATAA...

Protein

Download Protein FASTA

486 aa · LXL04_025383|LXL04_025383|OH1004|PROTEIN

MSESEEGNQRLQSSFGASSSSLPKLQSHIPFNHPDIRAQITQSPLNINTENTSKRVGMPHSHTQIPPLSPSSQIPVGNFQQTESSHNLTLATGPSHSKTLTQPSYFSLDSLPPLSPYRDPTSALTSDQMVTDHDSLPPRKTHRRSNSDIPFGFSTILQSSPPLIPSRGSKAMEVKRESNWDKNAGVTESKIGDRKSEGEVVDDFFSTYINLNNLGRLNSFRSETCEDLNSHTKTNGGDTSDNEATSSTNIHKLGPTLLID...

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_025383`
TK1151 ID	TkA06G062370
OH-1004 ID	LXL04_025383
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.800
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

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_025383

Location Chr05:110890783-110892490 (-)

Description Similar to RF2b: Transcription factor RF2b

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g38900`	Transcription factor that acts as a repressor of reproductive development, meristem size and plant growth.	Identification of novel transcriptional regulators of Zat12 using comprehensive yeast one-hybrid screens.2016 · DOI: 10.1111/ppl.12439 Functional characterization of the Arabidopsis transcription factor bZIP29 reveals its role in leaf and root development.2016 · DOI: 10.1093/jxb/erw347
`At2g21230`	Transcription factor that acts as a repressor of reproductive development, meristem size and plant growth.	Altered expression of the bZIP transcription factor DRINK ME affects growth and reproductive development in Arabidopsis thaliana.2016 · DOI: 10.1111/tpj.13264
`At2g31370`	Putative transcription factor with an activatory role.	No verified direct reference in this release
`At2g40620`	Transcription factor that may participate with bZIP34 in the gametophytic control of pollen development.	Characterization of pollen-expressed bZIP protein interactions and the role of ATbZIP18 in the male gametophyte.2017 · DOI: 10.1007/s00497-016-0295-5

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0336200`	Transcription factor probably involved in vascular development and shoot tissue organization.	RF2b, a rice bZIP transcription activator, interacts with RF2a and is involved in symptom development of rice tungro disease.2004 · DOI: 10.1073/pnas.0307687100

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_025383 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0010628 positive regulation of gene expression Biological Process

GO:0010629 negative regulation of gene expression Biological Process

GO:0090567 reproductive shoot system development Biological Process

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

GO:0048471 perinuclear region of cytoplasm Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0003677 DNA binding Molecular Function

KEGG gene cross-reference

ath:AT2G21230

ath:AT2G31370

ath:AT2G40620

ath:AT4G38900

dosa:Os03g0336200

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.

Nucleus0.962

Rank 1 · LXL04_025383 · OH-1004

Cytoplasm0.130

Rank 2 · LXL04_025383 · OH-1004

Cell membrane0.022

Rank 3 · LXL04_025383 · OH-1004

Endoplasmic reticulum0.010

Rank 4 · LXL04_025383 · OH-1004

Plastid0.009

Rank 5 · LXL04_025383 · 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.

PF07716.21bZIP_2351-400 aa

PF00170.27bZIP_1354-412 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_025383	`PF07716.21`	bZIP_2	351	400	2.5e-06	28.2
LXL04_025383	`PF00170.27`	bZIP_1	354	412	9.3e-09	36.0

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
`Q8H1F0`	Arabidopsis thaliana	bZIP transcription factor 29	47.348%	Swiss-Prot	moderate database homology
`Q9SIG8`	Arabidopsis thaliana	bZIP transcription factor 30	45.089%	Swiss-Prot	moderate database homology
`Q04088`	Arabidopsis thaliana	Probable transcription factor PosF21	42.909%	Swiss-Prot	moderate database homology
`O22873`	Arabidopsis thaliana	bZIP transcription factor 18	65.041%	Swiss-Prot	weak database homology
`Q6S4P4`	Oryza sativa subsp. japonica	Transcription factor RF2b	66.165%	Swiss-Prot	weak database homology

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