LXL04_004020 | RubberDandelionOmics

Gene overview

LXL04_004020

Reference: OH-1004 Chr: Chr01 Coordinates: 122149201-122157850 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

7599 bp · LXL04_004020|LXL04_004020|OH1004|cDNA

ATGCACGGACAACCACCGCGCTTCAGCCGTCATGGCGGCGGTAGAGGGCAACCTCCGCCGCAACAGCCATTTCAGCCGTTTATCAACCCTAATTATCtacaaaacaacaactattACCTCCAACCTCCAAATTTTCCTATGATGTTTCCTAATTTTCCCGTTGAAACCTCCAACATCCATACCCAAAACCTTAATTTACCCATTGGAAACCCCAACTTCATTACGCAAAACCTCAATATATCCACCGAAAACCCCAACTT...

CDS

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7599 bp · LXL04_004020|LXL04_004020|OH1004|CDS

ATGCACGGACAACCACCGCGCTTCAGCCGTCATGGCGGCGGTAGAGGGCAACCTCCGCCGCAACAGCCATTTCAGCCGTTTATCAACCCTAATTATCTACAAAACAACAACTATTACCTCCAACCTCCAAATTTTCCTATGATGTTTCCTAATTTTCCCGTTGAAACCTCCAACATCCATACCCAAAACCTTAATTTACCCATTGGAAACCCCAACTTCATTACGCAAAACCTCAATATATCCACCGAAAACCCCAACTT...

Protein

Download Protein FASTA

2532 aa · LXL04_004020|LXL04_004020|OH1004|PROTEIN

MHGQPPRFSRHGGGRGQPPPQQPFQPFINPNYLQNNNYYLQPPNFPMMFPNFPVETSNIHTQNLNLPIGNPNFITQNLNISTENPNFHMQNHRNAPHNQLAYNRVVPHNGANTIEKIDKAVIKARRELIAAGQNVSALKVSQAALVVLQADSWDSLGVQMQHVPCLYRLMLIEGKINAFIHCFVEVWKITTLSDLETAICKNEGVQQFEELELGPLIRHPLINHYFCVSSDSTAVFKISGREILSFLVEYMDAHKGKEVK...

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_004020`
TK1151 ID	TkA01G212220
OH-1004 ID	LXL04_004020
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	98.100
Protein coverage (%)	TK1151 99.349 / OH-1004 96.643 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_004020

Location Chr01:122149201-122157850 (+)

Description Similar to NOV: Protein NO VEIN

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g13750`	Essential protein required for cell fate determination during embryogenesis.	No verified direct reference in this release
`At1g08300`	Protein NO VEIN-LIKE.	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_004020 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0001708 cell fate specification Biological Process

GO:0009793 embryo development ending in seed dormancy Biological Process

GO:0009926 auxin polar transport Biological Process

GO:0010305 leaf vascular tissue pattern formation Biological Process

GO:0019827 stem cell population maintenance Biological Process

GO:0048364 root development Biological Process

GO:0005634 nucleus Cellular Component

KEGG gene cross-reference

ath:AT1G08300

ath:AT4G13750

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.

Nucleus0.677

Rank 1 · LXL04_004020 · OH-1004

Cytoplasm0.298

Rank 2 · LXL04_004020 · OH-1004

Cell membrane0.067

Rank 3 · LXL04_004020 · OH-1004

Endoplasmic reticulum0.044

Rank 4 · LXL04_004020 · OH-1004

Golgi apparatus0.033

Rank 5 · LXL04_004020 · 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.

PF25794.2SACS1093-1244 aa

PF13020.13NOV_C2420-2502 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_004020	`PF25794.2`	SACS	1093	1244	1.1e-11	45.8
LXL04_004020	`PF13020.13`	NOV_C	2420	2502	1.5e-19	70.6

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
`F4JTS8`	Arabidopsis thaliana	Protein NO VEIN	46.157%	Swiss-Prot	moderate database homology
`A0A1P8ARG1`	Arabidopsis thaliana	Protein NO VEIN-LIKE	35.758%	Swiss-Prot	weak database homology

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