LXL04_021807 | RubberDandelionOmics

Gene overview

LXL04_021807

Reference: OH-1004 Chr: Chr04 Coordinates: 137355833-137357365 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

984 bp · LXL04_021807|LXL04_021807|OH1004|cDNA

ATGCAAGATCCATCAAATCCCAATTCCAACTTGCCAAATCCGGCAACCTTCCCTTTCAGGCCGTCACACCACCGGCGTGCACACTCCGAGGTCAACTTCCGGCTACCGGAGGACCTAGATCTGGCATCAGAGTCATTCGATGCGCCTTCTGGAAGCTTCGAAGAGATTGGATCTGAGGATGATCTGTTTTCTACTTACCTCGACATGGAGAAGCTCGGATCTAGCTTGAAAGACGGCGGTGGCGTAACTGGCGGTTTGGA...

CDS

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984 bp · LXL04_021807|LXL04_021807|OH1004|CDS

ATGCAAGATCCATCAAATCCCAATTCCAACTTGCCAAATCCGGCAACCTTCCCTTTCAGGCCGTCACACCACCGGCGTGCACACTCCGAGGTCAACTTCCGGCTACCGGAGGACCTAGATCTGGCATCAGAGTCATTCGATGCGCCTTCTGGAAGCTTCGAAGAGATTGGATCTGAGGATGATCTGTTTTCTACTTACCTCGACATGGAGAAGCTCGGATCTAGCTTGAAAGACGGCGGTGGCGTAACTGGCGGTTTGGA...

Protein

Download Protein FASTA

327 aa · LXL04_021807|LXL04_021807|OH1004|PROTEIN

MQDPSNPNSNLPNPATFPFRPSHHRRAHSEVNFRLPEDLDLASESFDAPSGSFEEIGSEDDLFSTYLDMEKLGSSLKDGGGVTGGLDTGRISNAVGEGGASDDGYGGVDGEKSSMRPRHGHRHSNSVDGSSFFRESIEAKKAMAPDKLAELWTVDPKRAKRILANRQSAARSKERKARYITELERKVQTLQTEATTLSAQLALFQRDTNGLSSENTELKLRLQAMEQQAQLSDALNEALKQEVDRLRMATGETSRTTSDN...

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_021807`
TK1151 ID	TkA05G424130
OH-1004 ID	LXL04_021807
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.700
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_021807

Location Chr04:137355833-137357365 (+)

Description Similar to BZIP18: bZIP transcription factor 18

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`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
`At2g31370`	Putative transcription factor with an activatory role.	No verified direct reference in this release
`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

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
`Os09g0516200`	Transcription factor probably involved in vascular development and shoot tissue organization.	Transcription factor RF2a alters expression of the rice tungro bacilliform virus promoter in transgenic tobacco plants.2001 · DOI: 10.1073/pnas.121186398 Functional analysis of RF2a, a rice transcription factor.2003 · DOI: 10.1074/jbc.m304862200 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 RF2a, a bZIP transcriptional activator of the phloem-specific rice tungro bacilliform virus promoter, functions in vascular development.1997 · DOI: 10.1093/emboj/16.17.5247

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_021807 · 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: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

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0031490 chromatin DNA binding Molecular Function

KEGG gene cross-reference

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.

Nucleus0.977

Rank 1 · LXL04_021807 · OH-1004

Cytoplasm0.094

Rank 2 · LXL04_021807 · OH-1004

Cell membrane0.024

Rank 3 · LXL04_021807 · OH-1004

Endoplasmic reticulum0.014

Rank 4 · LXL04_021807 · OH-1004

Plastid0.010

Rank 5 · LXL04_021807 · 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_2155-205 aa

PF00170.27bZIP_1157-214 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_021807	`PF07716.21`	bZIP_2	155	205	2.3e-06	28.3
LXL04_021807	`PF00170.27`	bZIP_1	157	214	1.4e-08	35.4

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
`O22873`	Arabidopsis thaliana	bZIP transcription factor 18	52.973%	Swiss-Prot	strong database homology
`Q04088`	Arabidopsis thaliana	Probable transcription factor PosF21	51.394%	Swiss-Prot	strong database homology
`Q8H1F0`	Arabidopsis thaliana	bZIP transcription factor 29	66.438%	Swiss-Prot	weak database homology
`Q6S4P4`	Oryza sativa subsp. japonica	Transcription factor RF2b	53.560%	Swiss-Prot	strong database homology
`Q69IL4`	Oryza sativa subsp. japonica	Transcription factor RF2a	51.724%	Swiss-Prot	strong database homology

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