LXL04_012820 | RubberDandelionOmics

Gene overview

LXL04_012820

Reference: OH-1004 Chr: Chr03 Coordinates: 19413835-19414449 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

615 bp · LXL04_012820|LXL04_012820|OH1004|cDNA

ATGGCATCCATTAAAACTCTTCTCTCCATCACATTCATTTCCTTAACTATAATCCAACTAACCGTCTCAACCGACCCCGACATCCTAACCGACTACATTCTCCCACCAAACACAACCGTAACCGATCCAAACTATTTCACTTTCACGGGGTTAAGATCACTCGTGAACGCGACCTACCCACCAACTTTTACAGCCATCAAAGTCACTCAAACCGAATTCCCGGGCCTCATGGGCCAGAGTGTTTCCTATGCTGTTCTTGA...

CDS

Download CDS FASTA

615 bp · LXL04_012820|LXL04_012820|OH1004|CDS

ATGGCATCCATTAAAACTCTTCTCTCCATCACATTCATTTCCTTAACTATAATCCAACTAACCGTCTCAACCGACCCCGACATCCTAACCGACTACATTCTCCCACCAAACACAACCGTAACCGATCCAAACTATTTCACTTTCACGGGGTTAAGATCACTCGTGAACGCGACCTACCCACCAACTTTTACAGCCATCAAAGTCACTCAAACCGAATTCCCGGGCCTCATGGGCCAGAGTGTTTCCTATGCTGTTCTTGA...

Protein

Download Protein FASTA

204 aa · LXL04_012820|LXL04_012820|OH1004|PROTEIN

MASIKTLLSITFISLTIIQLTVSTDPDILTDYILPPNTTVTDPNYFTFTGLRSLVNATYPPTFTAIKVTQTEFPGLMGQSVSYAVLEFPIGSINPLHIHPRATELLFVIAGSLEVGFVDTSNKLFTQKLATGDMFVFPKGLVHFQYNSNGTEPAMAVSTFGSANAGTQSIANSVFNSTIYEGILAQSFNTSVNIVEKIESGLKG

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_012820`
TK1151 ID	TkA02G536580
OH-1004 ID	LXL04_012820
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 62.745 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

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Basic Information and Functional Annotation

Gene ID LXL04_012820

Location Chr03:19413835-19414449 (-)

Description Similar to Os09g0568700: Germin-like protein 9-3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g02335`	May play a role in plant defense.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os09g0568700`	May play a role in plant defense.	No verified direct reference in this release
`Os09g0568600`	May play a role in plant defense.	No verified direct reference in this release
`Os09g0568500`	May play a role in plant defense.	No verified direct reference in this release
`Os05g0277500`	May play a role in plant defense.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_012820 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0010497 plasmodesmata-mediated intercellular transport Biological Process

GO:2000280 regulation of root development Biological Process

GO:0005576 extracellular region Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0048046 apoplast Cellular Component

GO:0030145 manganese ion binding Molecular Function

KEGG gene cross-reference

ath:AT1G02335

dosa:Os05g0277500

dosa:Os09g0568500

dosa:Os09g0568700

osa:107277596

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.

Extracellular0.604

Rank 1 · LXL04_012820 · OH-1004

Endoplasmic reticulum0.117

Rank 2 · LXL04_012820 · OH-1004

Lysosome / Vacuole0.107

Rank 3 · LXL04_012820 · OH-1004

Cytoplasm0.087

Rank 4 · LXL04_012820 · OH-1004

Cell membrane0.046

Rank 5 · LXL04_012820 · 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.

PF00190.29Cupin_166-195 aa

PF07883.18Cupin_286-159 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_012820	`PF00190.29`	Cupin_1	66	195	1.7e-33	116.0
LXL04_012820	`PF07883.18`	Cupin_2	86	159	2.6e-10	40.6

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
`Q9FZ27`	Arabidopsis thaliana	Germin-like protein subfamily 2 member 2	36.530%	Swiss-Prot	moderate database homology
`Q652P9`	Oryza sativa subsp. japonica	Germin-like protein 9-3	52.083%	Swiss-Prot	strong database homology
`Q652Q0`	Oryza sativa subsp. japonica	Putative germin-like protein 9-2	52.105%	Swiss-Prot	strong database homology
`Q652Q1`	Oryza sativa subsp. japonica	Germin-like protein 9-1	48.901%	Swiss-Prot	moderate database homology
`Q6I544`	Oryza sativa subsp. japonica	Germin-like protein 5-1	39.896%	Swiss-Prot	moderate database homology

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