LXL04_025691 | RubberDandelionOmics

Gene overview

LXL04_025691

Reference: OH-1004 Chr: Chr05 Coordinates: 115336454-115345701 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

4761 bp · LXL04_025691|LXL04_025691|OH1004|cDNA

ATGTATCCCAGGGAGTATAATACATATAGGCAACAACAGCCAATGCCACAGTCCTACTCTGGTCAATCTGCCTACGATCAAAAGGTCCAGGCCCGGATTGAGCGCCTCGAAACTGTTCGAGCATTAGTCAATTGTAAGATGGAGGAAGGTGGGGACGTGAGCAGTCATGTTCTAAAGATGATGAATCATTTGGTTCATTTAAAGCGATTTGGCGATACATTCCCAAGAGAGATTGCTGTAGATATGATCCTACTTTCTTT...

CDS

Download CDS FASTA

4761 bp · LXL04_025691|LXL04_025691|OH1004|CDS

ATGTATCCCAGGGAGTATAATACATATAGGCAACAACAGCCAATGCCACAGTCCTACTCTGGTCAATCTGCCTACGATCAAAAGGTCCAGGCCCGGATTGAGCGCCTCGAAACTGTTCGAGCATTAGTCAATTGTAAGATGGAGGAAGGTGGGGACGTGAGCAGTCATGTTCTAAAGATGATGAATCATTTGGTTCATTTAAAGCGATTTGGCGATACATTCCCAAGAGAGATTGCTGTAGATATGATCCTACTTTCTTT...

Protein

Download Protein FASTA

1586 aa · LXL04_025691|LXL04_025691|OH1004|PROTEIN

MYPREYNTYRQQQPMPQSYSGQSAYDQKVQARIERLETVRALVNCKMEEGGDVSSHVLKMMNHLVHLKRFGDTFPREIAVDMILLSLPESFDTFIMIYNMNGWEKTLPELFNMLTTFEKSIPKKTSPVLVIREGGIKKPKPYKKKVAKTPQPKKKVAEEDACFECGVIGHWKRNCPTYLAELKKKKAEEGSAVVVDTGCGTHICNLLQGFRKSRQLNASEIILHVAMEQELQNIISVARLKKARFVYRFKDGCFHAFYFE...

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_025691`
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_025691

Location Chr05:115336454-115345701 (-)

Description Similar to RSA1: Protein SHORT ROOT IN SALT MEDIUM 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g03150`	Required for salt tolerance and sodium (Na) homeostasis after salt stress.	A nuclear calcium-sensing pathway is critical for gene regulation and salt stress tolerance in Arabidopsis.2013 · DOI: 10.1371/journal.pgen.1003755

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_025691 · 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:0006397 mRNA processing Biological Process

GO:0006974 DNA damage response Biological Process

GO:0008284 positive regulation of cell population proliferation Biological Process

GO:0008380 RNA splicing Biological Process

GO:0009411 response to UV Biological Process

GO:0009651 response to salt stress Biological Process

GO:0016055 Wnt signaling pathway Biological Process

GO:0030308 negative regulation of cell growth Biological Process

GO:0030335 positive regulation of cell migration Biological Process

GO:0031647 regulation of protein stability Biological Process

KEGG gene cross-reference

ath:AT2G03150

hsa:55749

hsa:57805

mmu:219158

mmu:67500

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_025691 · OH-1004

Cytoplasm0.112

Rank 2 · LXL04_025691 · OH-1004

Cell membrane0.018

Rank 3 · LXL04_025691 · OH-1004

Mitochondrion0.014

Rank 4 · LXL04_025691 · OH-1004

Endoplasmic reticulum0.008

Rank 5 · LXL04_025691 · 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.

PF14223.15Retrotran_gag_232-110 aa

PF14443.12DBC1848-963 aa

PF19256.5LAIKA1290-1354 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_025691	`PF14223.15`	Retrotran_gag_2	32	110	8.2e-08	32.9
LXL04_025691	`PF14443.12`	DBC1	848	963	4.4e-39	134.0
LXL04_025691	`PF19256.5`	LAIKA	1290	1354	1.1e-20	74.0

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`F4IS91`	Arabidopsis thaliana	Protein SHORT ROOT IN SALT MEDIUM 1	42.799%	Swiss-Prot	weak database homology

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