LXL04_039604 | RubberDandelionOmics

Gene overview

LXL04_039604

Reference: OH-1004 Chr: JAJTUU010000017.1 Coordinates: 587458-588902 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1023 bp · LXL04_039604|LXL04_039604|OH1004|cDNA

ATGACCGTTGATTATGTACGCAATTTCGTCGATCATGGAGAGCACAGATTCTTCAACGGGTTCTCAATTACTCCAGCTACCGCCGGGTTCCGCTTCCACCCCACCGACGAAGAGTTGGTGGTTCACTACCTCAAAAAAAGAGCCGCCTCCGCCCCTATTCCGGTGGCGATCATCGCCGAAATCGACCTCTACAAGTTCGATCCATGGGAGCTTCCCGATAAGGCGACATTTGGGGAGCAAGAGTGGTATTTCTTTAGCCC...

CDS

Download CDS FASTA

1023 bp · LXL04_039604|LXL04_039604|OH1004|CDS

ATGACCGTTGATTATGTACGCAATTTCGTCGATCATGGAGAGCACAGATTCTTCAACGGGTTCTCAATTACTCCAGCTACCGCCGGGTTCCGCTTCCACCCCACCGACGAAGAGTTGGTGGTTCACTACCTCAAAAAAAGAGCCGCCTCCGCCCCTATTCCGGTGGCGATCATCGCCGAAATCGACCTCTACAAGTTCGATCCATGGGAGCTTCCCGATAAGGCGACATTTGGGGAGCAAGAGTGGTATTTCTTTAGCCC...

Protein

Download Protein FASTA

340 aa · LXL04_039604|LXL04_039604|OH1004|PROTEIN

MTVDYVRNFVDHGEHRFFNGFSITPATAGFRFHPTDEELVVHYLKKRAASAPIPVAIIAEIDLYKFDPWELPDKATFGEQEWYFFSPRDRKYPNGARPNRAANSGYWKATGTDKPPPKGVKTNWIMHEYRLTDGKTISKPHGCDPTKPKGSLRLDDWVLCRIYKKNNIQRPMDSDGDDLHNMNGMLASIPPSISLAGGHQGTMGKPNAAMGYNAMLENHEHNLMFDGRINSNDTDTNTSNLLPMKRSMPGLFWNEDAGAG...

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_039604`
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_039604

Location JAJTUU010000017.1:587458-588902 (+)

Description Similar to NAC056: NAC transcription factor 56

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g15510`	Transcription factor of the NAC family (Probable).	NAC family proteins NARS1/NAC2 and NARS2/NAM in the outer integument regulate embryogenesis in Arabidopsis.2008 · DOI: 10.1105/tpc.108.060160
`At1g61110`	Transcription factor of the NAC family.	A cis regulatory element in the TAPNAC promoter directs tapetal gene expression.2011 · DOI: 10.1007/s11103-010-9713-5
`At1g52880`	May encode a transcription factor involved in the elaboration of shoot apical meristems (SAM) (Probable).	NAC family proteins NARS1/NAC2 and NARS2/NAM in the outer integument regulate embryogenesis in Arabidopsis.2008 · DOI: 10.1105/tpc.108.060160

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_039604 · 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:0009753 response to jasmonic acid Biological Process

GO:0009791 post-embryonic development Biological Process

GO:0009793 embryo development ending in seed dormancy Biological Process

GO:0009831 plant-type cell wall modification involved in multidimensional cell growth Biological Process

GO:0010628 positive regulation of gene expression Biological Process

GO:0045995 regulation of embryonic development Biological Process

GO:0048317 seed morphogenesis Biological Process

GO:0048608 reproductive structure development Biological Process

GO:0048731 system development Biological Process

GO:0080060 integument development Biological Process

KEGG gene cross-reference

ath:AT1G52880

ath:AT1G61110

ath:AT3G15510

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.

Nucleus0.960

Rank 1 · LXL04_039604 · OH-1004

Cytoplasm0.086

Rank 2 · LXL04_039604 · OH-1004

Cell membrane0.039

Rank 3 · LXL04_039604 · OH-1004

Endoplasmic reticulum0.035

Rank 4 · LXL04_039604 · OH-1004

Plastid0.016

Rank 5 · LXL04_039604 · 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.

PF02365.21NAM28-115 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_039604	`PF02365.21`	NAM	28	115	1.9e-38	132.4

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9LD44`	Arabidopsis thaliana	NAC transcription factor 56	45.337%	Swiss-Prot	moderate database homology
`Q8GY42`	Arabidopsis thaliana	NAC transcription factor 25	47.661%	Swiss-Prot	moderate database homology
`Q9ZNU2`	Arabidopsis thaliana	NAC domain-containing protein 18	69.753%	Swiss-Prot	weak database homology

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