LXL04_029835 | RubberDandelionOmics

Gene overview

LXL04_029835

Reference: OH-1004 Chr: Chr06 Coordinates: 101529282-101532850 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1635 bp · LXL04_029835|LXL04_029835|OH1004|cDNA

ATGGGAAAGCAAGGACCTTGCTATCACTGTGGTGTTACAAGCACCCCACTTTGGAGAAACGGCCCACCAGATAAGCCGATATTGTGCAATGCGTGTGGGTCCCGTTGGAGAACTAAAGGATCACTTGTGAACTACACCCCACTTCATGCAAGATCCGAGCCTGATGATTTTGAGGATCATAGAGTTGCAAGAGTCAAGACTATATCCATTAAGAACAAAGAGGCCAAGTTACTAAAAAGAAAACAGAATTATGACAATGT...

CDS

Download CDS FASTA

1635 bp · LXL04_029835|LXL04_029835|OH1004|CDS

ATGGGAAAGCAAGGACCTTGCTATCACTGTGGTGTTACAAGCACCCCACTTTGGAGAAACGGCCCACCAGATAAGCCGATATTGTGCAATGCGTGTGGGTCCCGTTGGAGAACTAAAGGATCACTTGTGAACTACACCCCACTTCATGCAAGATCCGAGCCTGATGATTTTGAGGATCATAGAGTTGCAAGAGTCAAGACTATATCCATTAAGAACAAAGAGGCCAAGTTACTAAAAAGAAAACAGAATTATGACAATGT...

Protein

Download Protein FASTA

544 aa · LXL04_029835|LXL04_029835|OH1004|PROTEIN

MGKQGPCYHCGVTSTPLWRNGPPDKPILCNACGSRWRTKGSLVNYTPLHARSEPDDFEDHRVARVKTISIKNKEAKLLKRKQNYDNVVAGGTGSFLLGGGSGGGSGGGGGGGYDHHNQGFRKGFDEDTSNRSSSGSAISNSDGYMQLGSADASDLTGPSQSSMVWDSMVPSRKRTCTNRLKQSPVEKLTKDLHTILHEQQSYFSGSSEEDLIFESDTPMVSVEIGHGSVLMRHPNSTTREEESEASSLSVDTKNEAYSRI...

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_029835`
TK1151 ID	TkA07G351890
OH-1004 ID	LXL04_029835
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	98.000
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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_029835

Location Chr06:101529282-101532850 (+)

Description Similar to GATA26: GATA transcription factor 26

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g17570`	Transcriptional regulator that specifically binds 5'-GATA-3' or 5'-GAT-3' motifs within gene promoters.	No verified direct reference in this release
`At5g47140`	Transcriptional regulator that specifically binds 5'-GATA-3' or 5'-GAT-3' motifs within gene promoters.	No verified direct reference in this release
`At3g45170`	Transcriptional activator that specifically binds 5'-GATA-3' or 5'-GAT-3' motifs within gene promoters.	No verified direct reference in this release
`At2g28340`	Transcriptional activator that specifically binds 5'-GATA-3' or 5'-GAT-3' motifs within gene promoters.	No verified direct reference in this release
`At5g66320`	Transcriptional activator that specifically binds 5'-GATA-3' or 5'-GAT-3' motifs within gene promoters.	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_029835 · 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:0006357 regulation of transcription by RNA polymerase II Biological Process

GO:0030154 cell differentiation Biological Process

GO:0045893 positive regulation of DNA-templated transcription Biological Process

GO:0005634 nucleus Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0008270 zinc ion binding Molecular Function

KEGG gene cross-reference

ath:AT2G28340

ath:AT3G45170

ath:AT4G17570

ath:AT5G47140

ath:AT5G66320

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

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.

Nucleus0.959

Rank 1 · LXL04_029835 · OH-1004

Cytoplasm0.113

Rank 2 · LXL04_029835 · OH-1004

Cell membrane0.029

Rank 3 · LXL04_029835 · OH-1004

Endoplasmic reticulum0.015

Rank 4 · LXL04_029835 · OH-1004

Plastid0.011

Rank 5 · LXL04_029835 · 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.

PF00320.34GATA7-41 aa

PF13919.12ASXH290-376 aa

PF16550.11RPN13_C307-372 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_029835	`PF00320.34`	GATA	7	41	4.1e-14	52.6
LXL04_029835	`PF13919.12`	ASXH	290	376	6.1e-09	36.7
LXL04_029835	`PF16550.11`	RPN13_C	307	372	3.5e-07	31.1

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
`Q8W4H1`	Arabidopsis thaliana	GATA transcription factor 26	46.026%	Swiss-Prot	moderate database homology
`Q5PP38`	Arabidopsis thaliana	GATA transcription factor 27	44.693%	Swiss-Prot	moderate database homology
`Q9M1U2`	Arabidopsis thaliana	GATA transcription factor 14	56.098%	Swiss-Prot	weak database homology
`Q9SKN6`	Arabidopsis thaliana	Putative GATA transcription factor 13	48.780%	Swiss-Prot	weak database homology
`Q9FH57`	Arabidopsis thaliana	GATA transcription factor 5	50.000%	Swiss-Prot	weak database homology

JBrowse

View in Genome Browser

Gene Card