LXL04_022192 | RubberDandelionOmics

Gene overview

LXL04_022192

Reference: OH-1004 Chr: Chr04 Coordinates: 145893408-145896331 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2073 bp · LXL04_022192|LXL04_022192|OH1004|cDNA

ATGCGACCTCCAAGAGGCGGAGGTTTCAGTAGTCGGGGTCGTGGTGGCGGCGGATTCAGAGGAGGCAGGGATGGCGGAGGCCGATTCGGTGGTGGACGAGGCGGCGGTGGTGGCCGTTTCGGTGGTGACAGGTTTAATGAAGGTCCCCCTGACCAAGTTGTAGAGGTTTCCGCATTTGTTCATGCCTGTGAAGGAGATGCAGTGACAAAGCTCACAAACGAGAAAATACCCTATTTCAATGCCCCCATTTACCTTCAAAA...

CDS

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2073 bp · LXL04_022192|LXL04_022192|OH1004|CDS

ATGCGACCTCCAAGAGGCGGAGGTTTCAGTAGTCGGGGTCGTGGTGGCGGCGGATTCAGAGGAGGCAGGGATGGCGGAGGCCGATTCGGTGGTGGACGAGGCGGCGGTGGTGGCCGTTTCGGTGGTGACAGGTTTAATGAAGGTCCCCCTGACCAAGTTGTAGAGGTTTCCGCATTTGTTCATGCCTGTGAAGGAGATGCAGTGACAAAGCTCACAAACGAGAAAATACCCTATTTCAATGCCCCCATTTACCTTCAAAA...

Protein

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690 aa · LXL04_022192|LXL04_022192|OH1004|PROTEIN

MRPPRGGGFSSRGRGGGGFRGGRDGGGRFGGGRGGGGGRFGGDRFNEGPPDQVVEVSAFVHACEGDAVTKLTNEKIPYFNAPIYLQNKTQIGKVDEIFGPINESFFSVKMMEGIVATSYAAGDKFYIDPMKLLPLARFLPQPKGASGGRGGGRGGGRGGGRGGGSFRGRGAPRGGRGGGFRGGGGGRGYLVRAFHAVEDADLALGNAKSSRGTPPPSNAAQFRVEGRWISNAEERCVVEYSNVERLHFLPLELDDPMDQT...

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_022192`
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_022192

Location Chr04:145893408-145896331 (-)

Description Similar to At3g03920: Putative H/ACA ribonucleoprotein complex subunit 1-like protein 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g03920`	Required for ribosome biogenesis.	No verified direct reference in this release
`At5g18180`	Required for ribosome biogenesis.	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_022192 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000454 snoRNA guided rRNA pseudouridine synthesis Biological Process

GO:0031120 snRNA pseudouridine synthesis Biological Process

GO:0005634 nucleus Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0009535 chloroplast thylakoid membrane Cellular Component

GO:0010494 cytoplasmic stress granule Cellular Component

GO:0031429 box H/ACA snoRNP complex Cellular Component

GO:0003729 mRNA binding Molecular Function

GO:0034513 box H/ACA snoRNA binding Molecular Function

GO:0042802 identical protein binding Molecular Function

KEGG gene cross-reference

ath:AT3G03920

ath:AT5G18180

kla:KLLA0_F21604g

pic:PICST_75322

sce:YHR089C

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.

Nucleus0.923

Rank 1 · LXL04_022192 · OH-1004

Cytoplasm0.204

Rank 2 · LXL04_022192 · OH-1004

Mitochondrion0.022

Rank 3 · LXL04_022192 · OH-1004

Cell membrane0.018

Rank 4 · LXL04_022192 · OH-1004

Endoplasmic reticulum0.013

Rank 5 · LXL04_022192 · 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.

PF04410.21Gar153-139 aa

PF14303.13NAM-associated480-634 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_022192	`PF04410.21`	Gar1	53	139	6.2e-27	93.9
LXL04_022192	`PF14303.13`	NAM-associated	480	634	4.9e-06	28.2

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
`Q8VZT0`	Arabidopsis thaliana	Putative H/ACA ribonucleoprotein complex subunit 1-like protein 1	84.158%	Swiss-Prot	weak database homology
`Q9FK53`	Arabidopsis thaliana	H/ACA ribonucleoprotein complex subunit 1-like protein 2	79.245%	Swiss-Prot	weak database homology

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