LXL04_015629 | RubberDandelionOmics

Gene overview

LXL04_015629

Reference: OH-1004 Chr: Chr03 Coordinates: 78225934-78228972 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1571 bp · LXL04_015629|LXL04_015629|OH1004|cDNA

CTCCCCACCCTCCCAATTCAAAACCCTAAAACCATTCCCAAACTTCTCGCTGCATATCTCCCGctgcctctctctctctctctctctctctctctctctctcatacaCGGATTACGAATATGGTAGCGATGCAACTCGATGAAGAAACCGTCAAGAAAGTTATTCGACAGGTTGAGTTCTATTTCAGTGATAGTAACCTTCCAAGGGATGATTTTCTTAAGAAGACCATTGCAGAGAGTGAAGATGGAAGTAAAACTGAA...

CDS

Download CDS FASTA

1452 bp · LXL04_015629|LXL04_015629|OH1004|CDS

ATGGTAGCGATGCAACTCGATGAAGAAACCGTCAAGAAAGTTATTCGACAGGTTGAGTTCTATTTCAGTGATAGTAACCTTCCAAGGGATGATTTTCTTAAGAAGACCATTGCAGAGAGTGAAGATGGAAGTAAAACTGAAGTTGAGAAGCGTATTAGTCAAGTGCTTTCACCAATTTTACAGGTTATGTGCATTATGTGTCTTTTTGAATGTAAAAATGTTAGCTTGTGTCAGATGCTGTTCATGATTTTCTTAACCGA...

Protein

Download Protein FASTA

483 aa · LXL04_015629|LXL04_015629|OH1004|PROTEIN

MVAMQLDEETVKKVIRQVEFYFSDSNLPRDDFLKKTIAESEDGSKTEVEKRISQVLSPILQVMCIMCLFECKNVSLCQMLFMIFLTESTVVSLALICSFSRMRGHLSLGDVKVEDVPEDTVAAVAETLKNSTTVKISEDGKKVGRTTELPKVEEAIEQLDSRTIAASPLEYDIKLEDVESFFGQYFKVNSVRLPRHVSDKKLFCGTALIEFSCEEDATKILTEKLVFRGAELELKTKKEFDEKRAEQEEAENTRRTMIQN...

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_015629`
TK1151 ID	TkA02G308730
OH-1004 ID	LXL04_015629
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	89.500
Protein coverage (%)	TK1151 91.824 / OH-1004 100.000 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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_015629

Location Chr03:78225934-78228972 (-)

Description Similar to LA1: La protein 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g32720`	Binds to the 3' poly(U) terminus of nascent RNA polymerase III transcripts, protecting them from exonuclease digestion and facilitating their folding and maturation.	No verified direct reference in this release
`At1g79880`	Binds to the 3' poly(U) terminus of nascent RNA polymerase III transcripts, protecting them from exonuclease digestion and facilitating their folding and maturation.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_015629 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0001682 tRNA 5'-leader removal Biological Process

GO:0006364 rRNA processing Biological Process

GO:0006400 tRNA modification Biological Process

GO:0006409 tRNA export from nucleus Biological Process

GO:0008033 tRNA processing Biological Process

GO:0008334 histone mRNA metabolic process Biological Process

GO:0009793 embryo development ending in seed dormancy Biological Process

GO:0031126 sno(s)RNA 3'-end processing Biological Process

GO:0042254 ribosome biogenesis Biological Process

GO:0042780 tRNA 3'-end processing Biological Process

GO:0045727 positive regulation of translation Biological Process

GO:0071045 nuclear histone mRNA catabolic process Biological Process

KEGG gene cross-reference

ath:AT1G79880

ath:AT4G32720

bta:338071

hsa:6741

sce:YDL051W

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.

Nucleus0.808

Rank 1 · LXL04_015629 · OH-1004

Cytoplasm0.266

Rank 2 · LXL04_015629 · OH-1004

Mitochondrion0.044

Rank 3 · LXL04_015629 · OH-1004

Cell membrane0.025

Rank 4 · LXL04_015629 · OH-1004

Endoplasmic reticulum0.017

Rank 5 · LXL04_015629 · 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.

PF05383.24La14-43 aa

PF00076.29RRM_1169-222 aa

PF08777.18RRM_3344-438 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_015629	`PF05383.24`	La	14	43	4.9e-15	55.9
LXL04_015629	`PF00076.29`	RRM_1	169	222	2.5e-11	44.0
LXL04_015629	`PF08777.18`	RRM_3	344	438	3.5e-18	66.3

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
`Q93ZV7`	Arabidopsis thaliana	La protein 1	51.264%	Swiss-Prot	strong database homology
`Q0V7U7`	Arabidopsis thaliana	La protein 2	39.110%	Swiss-Prot	moderate database homology

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