LXL04_018853 | RubberDandelionOmics

Gene overview

LXL04_018853

Reference: OH-1004 Chr: Chr04 Coordinates: 19179127-19185659 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2364 bp · LXL04_018853|LXL04_018853|OH1004|cDNA

ATGCGGCCTGCGAAGGAGGATGCACCATGCAAGGCGAAACAAGCAGTCGATTTGGTTTCAGCTATCAAAGAGTTACATTCACTAAGTTCTCAAGAACTTAGCAAGTTAATCAGAGATGCAGACAATGATACTATTCAATGGACTACAAGCGATGGATCATCAAATCAGATTGATGTGGAAACCCTAGCAAGAAACTTTGGAGTTCACCTAATTGCAAAACTTATGTCATCCAAAAGAGATGAAGAACTCTTCAGATACTT...

CDS

Download CDS FASTA

2364 bp · LXL04_018853|LXL04_018853|OH1004|CDS

ATGCGGCCTGCGAAGGAGGATGCACCATGCAAGGCGAAACAAGCAGTCGATTTGGTTTCAGCTATCAAAGAGTTACATTCACTAAGTTCTCAAGAACTTAGCAAGTTAATCAGAGATGCAGACAATGATACTATTCAATGGACTACAAGCGATGGATCATCAAATCAGATTGATGTGGAAACCCTAGCAAGAAACTTTGGAGTTCACCTAATTGCAAAACTTATGTCATCCAAAAGAGATGAAGAACTCTTCAGATACTT...

Protein

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787 aa · LXL04_018853|LXL04_018853|OH1004|PROTEIN

MRPAKEDAPCKAKQAVDLVSAIKELHSLSSQELSKLIRDADNDTIQWTTSDGSSNQIDVETLARNFGVHLIAKLMSSKRDEELFRYLLGGLRLLHGLCDQATRNSKLEQVLLDDMKVSEQMFDLIFYMITVLASFKKESPLALVHSALLACSLYLLTAFISSQWHELALVLLAHPKVDIFMPVAFAAVHIDIQFLQVKLSEFTDTGTQSNLAEVNRLCQHCEASLQFLQSLCQQRFFRERLVKNKELCGEGGILLLAHDI...

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_018853`
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_018853

Location Chr04:19179127-19185659 (-)

Description Similar to NDX: Nodulin homeobox

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g03090`	Regulates COOLAIR, a set of antisense transcripts originating from the 3' end of FLOWERING LOCUS C (FLC).	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_018853 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009845 seed germination Biological Process

GO:0009908 flower development Biological Process

GO:0048364 root development Biological Process

GO:0060195 negative regulation of antisense RNA transcription Biological Process

GO:0005634 nucleus Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0003697 single-stranded DNA binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0043565 sequence-specific DNA binding Molecular Function

KEGG gene cross-reference

ath:AT4G03090

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.

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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.

Nucleus0.814

Rank 1 · LXL04_018853 · OH-1004

Cytoplasm0.231

Rank 2 · LXL04_018853 · OH-1004

Cell membrane0.044

Rank 3 · LXL04_018853 · OH-1004

Endoplasmic reticulum0.033

Rank 4 · LXL04_018853 · OH-1004

Golgi apparatus0.028

Rank 5 · LXL04_018853 · 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.

PF25246.2Nodulin_N14-517 aa

PF24426.2HTH_NDX646-708 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_018853	`PF25246.2`	Nodulin_N	14	517	6.4e-221	735.0
LXL04_018853	`PF24426.2`	HTH_NDX	646	708	2e-34	118.0

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.

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Protein	Organism	Description	Identity	Database	Confidence
`F4JI44`	Arabidopsis thaliana	Nodulin homeobox	39.651%	Swiss-Prot	moderate database homology

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