LXL04_011116 | RubberDandelionOmics

Gene overview

LXL04_011116

Reference: OH-1004 Chr: Chr02 Coordinates: 158090320-158097125 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1245 bp · LXL04_011116|LXL04_011116|OH1004|cDNA

ATGATTACGAATGTTCTTGAGTTAGAGAGGAATGGAAATATGGAATGGAAAGTCCCCTTTCTCTTTCCTTACCtttctctctcctctctcctcTCTCCTATCTCTTTCTTTCCTTCTCTCCCCTCCCTCTCTCCTCTCTCCTCTCTCCAGAAAAAAAAGAGCTGTTTTACCCACACAACATCATCCATGGATGACGACGGATTGAATATGCGAAATTGGGGGTATTACGAGCCCTCATTCAAGGAACATCTCGGATTACA...

CDS

Download CDS FASTA

1245 bp · LXL04_011116|LXL04_011116|OH1004|CDS

ATGATTACGAATGTTCTTGAGTTAGAGAGGAATGGAAATATGGAATGGAAAGTCCCCTTTCTCTTTCCTTACCTTTCTCTCTCCTCTCTCCTCTCTCCTATCTCTTTCTTTCCTTCTCTCCCCTCCCTCTCTCCTCTCTCCTCTCTCCAGAAAAAAAAGAGCTGTTTTACCCACACAACATCATCCATGGATGACGACGGATTGAATATGCGAAATTGGGGGTATTACGAGCCCTCATTCAAGGAACATCTCGGATTACA...

Protein

Download Protein FASTA

414 aa · LXL04_011116|LXL04_011116|OH1004|PROTEIN

MITNVLELERNGNMEWKVPFLFPYLSLSSLLSPISFFPSLPSLSPLSSLQKKKSCFTHTTSSMDDDGLNMRNWGYYEPSFKEHLGLQLMSPLADHRDTKPFLSSRENPLMMNQNGGSSMTTAYHHRPQNCVVSEAPIPLHYMRDSWIQRERLLHMLPGNPNFSLLPDASASSSMHMMQPIDLPKEPVDDNAGVNGEVGGSGPLKKRSAGGTNPKPPRAKKPRKPPAAPKENGNPGQRSKVVKRSMDVVINGVDMDISGIP...

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_011116`
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_011116

Location Chr02:158090320-158097125 (-)

Description Similar to BPC1: Protein BASIC PENTACYSTEINE1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g01930`	Transcriptional regulator that specifically binds to GA-rich elements (GAGA-repeats) present in regulatory sequences of genes involved in developmental processes.	BASIC PENTACYSTEINE1, a GA binding protein that induces conformational changes in the regulatory region of the homeotic Arabidopsis gene SEEDSTICK.2005 · DOI: 10.1105/tpc.104.030130
`At1g14685`	Transcriptional regulator that specifically binds to GA-rich elements (GAGA-repeats) present in regulatory sequences of genes involved in developmental processes.	No verified direct reference in this release
`At1g68120`	Transcriptional regulator that specifically binds to GA-rich elements (GAGA-repeats) present in regulatory sequences of genes involved in developmental processes.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os10g0115200`	Transcriptional regulator that specifically binds to GA-rich elements (GAGA-repeats) present in regulatory sequences of genes involved in developmental processes.	No verified direct reference in this release
`Os10g0114500`	Transcriptional regulator that specifically binds to GA-rich elements (GAGA-repeats) present in regulatory sequences of genes involved in developmental processes.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_011116 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0009723 response to ethylene Biological Process

GO:0050793 regulation of developmental process Biological Process

GO:0080157 regulation of plant-type cell wall organization or biogenesis Biological Process

GO:1901002 positive regulation of response to salt stress Biological Process

GO:0005634 nucleus Cellular Component

GO:0000987 cis-regulatory region sequence-specific DNA binding Molecular Function

GO:0001222 transcription corepressor binding Molecular Function

GO:0003677 DNA binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0043565 sequence-specific DNA binding Molecular Function

GO:1990837 sequence-specific double-stranded DNA binding Molecular Function

KEGG gene cross-reference

ath:AT1G14685

ath:AT1G68120

ath:AT2G01930

dosa:Os10g0114500

dosa:Os10g0115200

osa:4347983

osa:9268674

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.

Nucleus0.919

Rank 1 · LXL04_011116 · OH-1004

Cytoplasm0.135

Rank 2 · LXL04_011116 · OH-1004

Cell membrane0.049

Rank 3 · LXL04_011116 · OH-1004

Endoplasmic reticulum0.040

Rank 4 · LXL04_011116 · OH-1004

Plastid0.015

Rank 5 · LXL04_011116 · 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.

PF06217.18GAGA_bind63-347 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_011116	`PF06217.18`	GAGA_bind	63	347	3.6e-88	297.2

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
`Q9SKD0`	Arabidopsis thaliana	Protein BASIC PENTACYSTEINE1	53.115%	Swiss-Prot	moderate database homology
`Q9LDE2`	Arabidopsis thaliana	Protein BASIC PENTACYSTEINE2	51.014%	Swiss-Prot	moderate database homology
`Q9C9X6`	Arabidopsis thaliana	Protein BASIC PENTACYSTEINE3	47.279%	Swiss-Prot	moderate database homology
`P0DH89`	Oryza sativa subsp. japonica	Barley B recombinant-like protein B	69.333%	Swiss-Prot	weak database homology
`P0DH88`	Oryza sativa subsp. japonica	Barley B recombinant-like protein A	69.333%	Swiss-Prot	weak database homology

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