LXL04_013061 | RubberDandelionOmics

Gene overview

LXL04_013061

Reference: OH-1004 Chr: Chr03 Coordinates: 23377641-23379430 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

771 bp · LXL04_013061|LXL04_013061|OH1004|cDNA

ATGGCCGCCAAAGGTGGAGCAGCTCCGGCGACGTACTCACCGTCCCCAACAACCTATAAGAAGAAGAGAGCTCCCATTTTCACCGACGTTGATTGGGTACGGCCCGACGGTCGCGATTTCCACCATTGTAGACCTGCATTTCTAAGAACCGGAGCAGTAAATGCAGCATCAGGATCTGCTTATGCAGAGTTTGGTAACACTAAGGTCATCGTGTCTATATTTGGTCCCAGGGAAAGTAAGAAAGCATTGATGTATAGTGA...

CDS

Download CDS FASTA

771 bp · LXL04_013061|LXL04_013061|OH1004|CDS

ATGGCCGCCAAAGGTGGAGCAGCTCCGGCGACGTACTCACCGTCCCCAACAACCTATAAGAAGAAGAGAGCTCCCATTTTCACCGACGTTGATTGGGTACGGCCCGACGGTCGCGATTTCCACCATTGTAGACCTGCATTTCTAAGAACCGGAGCAGTAAATGCAGCATCAGGATCTGCTTATGCAGAGTTTGGTAACACTAAGGTCATCGTGTCTATATTTGGTCCCAGGGAAAGTAAGAAAGCATTGATGTATAGTGA...

Protein

Download Protein FASTA

256 aa · LXL04_013061|LXL04_013061|OH1004|PROTEIN

MAAKGGAAPATYSPSPTTYKKKRAPIFTDVDWVRPDGRDFHHCRPAFLRTGAVNAASGSAYAEFGNTKVIVSIFGPRESKKALMYSDTGRLNCNVSYTTFATPVRGQASDNKEISSQLHKSLEGAIMLDTFPKTTVDVFALVLESGGCDLPVVISCASLALADAGIMMYDLVAAVSVSCLGKNLVIDPVSEEENYQDGSLTITCLPSRNEVSQLTITGEWSSPKIHEGMELCLDACAKLGKIMRSCLKESASTSQE

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_013061`
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_013061

Location Chr03:23377641-23379430 (-)

Description Similar to RRP41L: Exosome complex component RRP41-like

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g27490`	Non-catalytic component of the RNA exosome complex which has 3'->5' exoribonuclease activity and participates in a multitude of cellular RNA processing, maturation and degradation events.	RRP41L, a putative core subunit of the exosome, plays an important role in seed germination and early seedling growth in Arabidopsis.2013 · DOI: 10.1104/pp.112.206706

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_013061 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000956 nuclear-transcribed mRNA catabolic process Biological Process

GO:0006364 rRNA processing Biological Process

GO:0009845 seed germination Biological Process

GO:0010467 gene expression Biological Process

GO:0016075 rRNA catabolic process Biological Process

GO:0034475 U4 snRNA 3'-end processing Biological Process

GO:0071028 nuclear mRNA surveillance Biological Process

GO:0071051 poly(A)-dependent snoRNA 3'-end processing Biological Process

GO:0090351 seedling development Biological Process

GO:0000176 nuclear exosome (RNase complex) Cellular Component

GO:0000177 cytoplasmic exosome (RNase complex) Cellular Component

GO:0000178 exosome (RNase complex) Cellular Component

KEGG gene cross-reference

ath:AT4G27490

dre:326786

pfu:PF1568

pho:PH1549

xtr:549770

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.

Nucleus0.687

Rank 1 · LXL04_013061 · OH-1004

Cytoplasm0.496

Rank 2 · LXL04_013061 · OH-1004

Mitochondrion0.076

Rank 3 · LXL04_013061 · OH-1004

Cell membrane0.029

Rank 4 · LXL04_013061 · OH-1004

Endoplasmic reticulum0.025

Rank 5 · LXL04_013061 · 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.

PF01138.28RNase_PH43-166 aa

PF03725.21RNase_PH_C170-231 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_013061	`PF01138.28`	RNase_PH	43	166	1.5e-29	103.7
LXL04_013061	`PF03725.21`	RNase_PH_C	170	231	1.4e-09	38.5

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
`A2RVK7`	Arabidopsis thaliana	Exosome complex component RRP41-like	72.093%	Swiss-Prot	strong database homology

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