LXL04_005401 | RubberDandelionOmics

Gene overview

LXL04_005401

Reference: OH-1004 Chr: Chr01 Coordinates: 162651749-162658669 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1581 bp · LXL04_005401|LXL04_005401|OH1004|cDNA

ATGGAGAACATGGTAAAGTTTGGTCCCAAGCAATTGAGAGGAACAATTTGGGACGAGGGTGGCAAGACtaaaattttgcaaatcttAATTTCACATGAAGAATATGCCATCCATTCGATCCAGTTTGTATATGTTGTGGATGGGCAAGTGGTTCGTTCAAACATTCATGGAGAACCCAACGGTTTAAAAATTGATGTCGTGACGTTTGATCATCCGAGGGAGTATTTAGTTTCCGTAAGTGGTCAGTATTGGGATGATAA...

CDS

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1581 bp · LXL04_005401|LXL04_005401|OH1004|CDS

ATGGAGAACATGGTAAAGTTTGGTCCCAAGCAATTGAGAGGAACAATTTGGGACGAGGGTGGCAAGACTAAAATTTTGCAAATCTTAATTTCACATGAAGAATATGCCATCCATTCGATCCAGTTTGTATATGTTGTGGATGGGCAAGTGGTTCGTTCAAACATTCATGGAGAACCCAACGGTTTAAAAATTGATGTCGTGACGTTTGATCATCCGAGGGAGTATTTAGTTTCCGTAAGTGGTCAGTATTGGGATGATAA...

Protein

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526 aa · LXL04_005401|LXL04_005401|OH1004|PROTEIN

MENMVKFGPKQLRGTIWDEGGKTKILQILISHEEYAIHSIQFVYVVDGQVVRSNIHGEPNGLKIDVVTFDHPREYLVSVSGQYWDDKFGTNNGKYGPYGTHKDVYFYSKFVYNFGPRSSFGGFHGTVDKSCVYAIGVYVKPIVSLSETEADTAGKLKTFKPLGRSFMFLGRIPSHVGDKRRSEFNSIILTDTQSKFNYLFHRIYYLSNRFVAVAIHLWFQNSNLNHHLLCQMEDNQKFSPVSMELEGSIWDEGGNTDIVQ...

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_005401`
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_005401

Location Chr01:162651749-162658669 (+)

Description Similar to RTM1: Inactive protein RESTRICTED TEV MOVEMENT 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`UniProt: D9UBG0`	Unable to mediate restriction of long-distance movement of the pathogenic tobacco etch virus (TEV) without causing a hypersensitive response or inducing systemic acquired resistance.	No verified direct reference in this release
`At1g05760`	Required for the restriction of long-distance movement of the pathogenic tobacco etch virus (TEV) without causing a hypersensitive response or inducing systemic acquired resistance.	Cloning of the Arabidopsis RTM1 gene, which controls restriction of long-distance movement of tobacco etch virus.2000 · DOI: 10.1073/pnas.97.1.489 Arabidopsis RTM2 gene is necessary for specific restriction of tobacco etch virus and encodes an unusual small heat shock-like protein.2000 · DOI: 10.1105/tpc.12.4.569 Identification and characterization of a locus (RTM1) that restricts long-distance movement of tobacco etch virus in Arabidopsis thaliana.1998 · DOI: 10.1046/j.1365-313x.1998.00105.x
`UniProt: D9UBI3`	Unable to mediate restriction of long-distance movement of the pathogenic tobacco etch virus (TEV) without causing a hypersensitive response or inducing systemic acquired resistance.	No verified direct reference in this release
`At1g05770`	Jacalin-related lectin 2.	No verified direct reference in this release
`At1g60130`	Jacalin-related lectin 18.	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_005401 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006952 defense response Biological Process

GO:0009615 response to virus Biological Process

GO:0046741 transport of virus in host, tissue to tissue Biological Process

GO:0051607 defense response to virus Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0030246 carbohydrate binding Molecular Function

KEGG gene cross-reference

ath:AT1G05760

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.

Cytoplasm0.609

Rank 1 · LXL04_005401 · OH-1004

Nucleus0.250

Rank 2 · LXL04_005401 · OH-1004

Extracellular0.098

Rank 3 · LXL04_005401 · OH-1004

Cell membrane0.090

Rank 4 · LXL04_005401 · OH-1004

Lysosome / Vacuole0.082

Rank 5 · LXL04_005401 · 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.

PF01419.23Jacalin13-138 aa

PF01419.23Jacalin246-372 aa

PF01419.23Jacalin399-511 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_005401	`PF01419.23`	Jacalin	13	138	4.9e-58	196.1
LXL04_005401	`PF01419.23`	Jacalin	246	372	4.9e-58	196.1
LXL04_005401	`PF01419.23`	Jacalin	399	511	4.9e-58	196.1

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
`D9UBG0`	Arabidopsis thaliana	Inactive protein RESTRICTED TEV MOVEMENT 1	37.975%	Swiss-Prot	weak database homology
`Q9SE37`	Arabidopsis thaliana	Protein RESTRICTED TEV MOVEMENT 1	37.975%	Swiss-Prot	weak database homology
`D9UBI3`	Arabidopsis thaliana	Inactive protein RESTRICTED TEV MOVEMENT 1	39.189%	Swiss-Prot	weak database homology
`Q9MA49`	Arabidopsis thaliana	Jacalin-related lectin 2	31.515%	Swiss-Prot	weak database homology
`O80737`	Arabidopsis thaliana	Jacalin-related lectin 18	27.974%	Swiss-Prot	weak database homology

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