LXL04_005739 | RubberDandelionOmics

Gene overview

LXL04_005739

Reference: OH-1004 Chr: Chr01 Coordinates: 172548920-172553812 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2049 bp · LXL04_005739|LXL04_005739|OH1004|cDNA

ATGGGTAACTGTCTGCCGATGGAAGATTTAAGTAAGCTATTTCGGCCTCGCCGGGATGAGTTTCTCAAACTATCTCAAGACGACAAACTCTGGGCATTCCTTGCAACGTTTCCAACTCCACTTCAATATACGAAACCTCAGTTCTACTTCATATTATGGGTTTTTTGGAGTCAACAAGCAGTATCTCGAAACAATTCATCTTCAAACGAATTTGTAATCCACGAGAAGATAAGATCTTCGTTTTATAAGTTTGATTTGAC...

CDS

Download CDS FASTA

2049 bp · LXL04_005739|LXL04_005739|OH1004|CDS

ATGGGTAACTGTCTGCCGATGGAAGATTTAAGTAAGCTATTTCGGCCTCGCCGGGATGAGTTTCTCAAACTATCTCAAGACGACAAACTCTGGGCATTCCTTGCAACGTTTCCAACTCCACTTCAATATACGAAACCTCAGTTCTACTTCATATTATGGGTTTTTTGGAGTCAACAAGCAGTATCTCGAAACAATTCATCTTCAAACGAATTTGTAATCCACGAGAAGATAAGATCTTCGTTTTATAAGTTTGATTTGAC...

Protein

Download Protein FASTA

682 aa · LXL04_005739|LXL04_005739|OH1004|PROTEIN

MGNCLPMEDLSKLFRPRRDEFLKLSQDDKLWAFLATFPTPLQYTKPQFYFILWVFWSQQAVSRNNSSSNEFVIHEKIRSSFYKFDLTLYDFDGLIQFWAPVTTAGRRLLTTSDQPFAVNYLDTGLDKFRLCSLNYRYNIDVNKLDVDNETTIISGAPASAFLNHLPEVVLDLKAHDNGCPLVRSALECDLMAYIVLPVHDPCQRCCVGVVECFMKRSDCSLVIFNKLNESLEGVGLSTFDVRECLPYKSIHGLKETKHNI...

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_005739`
TK1151 ID	TkA01G019370
OH-1004 ID	LXL04_005739
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	88.600
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_005739

Location Chr01:172548920-172553812 (-)

Description Similar to NLP6: Protein NLP6

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g64530`	Probable transcription factor.	No verified direct reference in this release
`At4g24020`	Transcription factor involved in regulation of nitrate assimilation and in transduction of the nitrate signal.	The nodule inception-like protein 7 modulates nitrate sensing and metabolism in Arabidopsis.2009 · DOI: 10.1111/j.1365-313x.2008.03695.x
`At1g76350`	Probable transcription factor.	No verified direct reference in this release
`At3g59580`	Probable transcription factor.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0236700`	Probable transcription factor.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_005739 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0009414 response to water deprivation Biological Process

GO:0010118 stomatal movement Biological Process

GO:0010167 response to nitrate Biological Process

GO:0042128 nitrate assimilation Biological Process

GO:0005634 nucleus Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

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

GO:0001046 core promoter sequence-specific DNA binding Molecular Function

GO:0001216 DNA-binding transcription activator activity Molecular Function

GO:0003677 DNA binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

KEGG gene cross-reference

ath:AT1G64530

ath:AT4G24020

dosa:Os01g0236700

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.

Nucleus0.722

Rank 1 · LXL04_005739 · OH-1004

Cytoplasm0.274

Rank 2 · LXL04_005739 · OH-1004

Cell membrane0.105

Rank 3 · LXL04_005739 · OH-1004

Endoplasmic reticulum0.049

Rank 4 · LXL04_005739 · OH-1004

Plastid0.022

Rank 5 · LXL04_005739 · 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.

PF22922.3GAF_NLP257-408 aa

PF02042.22RWP-RK467-535 aa

PF00564.31PB1597-677 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_005739	`PF22922.3`	GAF_NLP	257	408	2e-26	93.3
LXL04_005739	`PF02042.22`	RWP-RK	467	535	5.4e-12	46.4
LXL04_005739	`PF00564.31`	PB1	597	677	1.1e-10	42.0

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q8RWY4`	Arabidopsis thaliana	Protein NLP6	25.211%	Swiss-Prot	weak database homology
`Q84TH9`	Arabidopsis thaliana	Protein NLP7	29.876%	Swiss-Prot	weak database homology
`Q9SFW8`	Arabidopsis thaliana	Protein NLP5	23.309%	Swiss-Prot	weak database homology
`Q9M1B0`	Arabidopsis thaliana	Protein NLP9	27.216%	Swiss-Prot	weak database homology
`Q5NB82`	Oryza sativa subsp. japonica	Protein NLP3	28.144%	Swiss-Prot	weak database homology

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