LXL04_021710 | RubberDandelionOmics

Gene overview

LXL04_021710

Reference: OH-1004 Chr: Chr04 Coordinates: 135661961-135666369 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2532 bp · LXL04_021710|LXL04_021710|OH1004|cDNA

ATGCCTCCTCGGAAGACGCCTGCAAAGCGCAAGAAGCCACCACCAGCAACCACACCTACCCCCGTCGATGATCGTAAATCACCGAAACAAGAAGTTGAAACGGTAGCTGAATTGCCGAATGTTTCGAAAGTCGAGACGGAGGAGATATCGGGTCAGGTAGAAGTATCCGATCCTATTTTAGCTAAAATCGACGGGGATTCAACTACAGCTGTTGCGTTTTCTCCCAAATTGGTGATTGAGGCGGATGTAGTTGTGGAGAA...

CDS

Download CDS FASTA

2532 bp · LXL04_021710|LXL04_021710|OH1004|CDS

ATGCCTCCTCGGAAGACGCCTGCAAAGCGCAAGAAGCCACCACCAGCAACCACACCTACCCCCGTCGATGATCGTAAATCACCGAAACAAGAAGTTGAAACGGTAGCTGAATTGCCGAATGTTTCGAAAGTCGAGACGGAGGAGATATCGGGTCAGGTAGAAGTATCCGATCCTATTTTAGCTAAAATCGACGGGGATTCAACTACAGCTGTTGCGTTTTCTCCCAAATTGGTGATTGAGGCGGATGTAGTTGTGGAGAA...

Protein

Download Protein FASTA

843 aa · LXL04_021710|LXL04_021710|OH1004|PROTEIN

MPPRKTPAKRKKPPPATTPTPVDDRKSPKQEVETVAELPNVSKVETEEISGQVEVSDPILAKIDGDSTTAVAFSPKLVIEADVVVENSAVGDVNEARNEDVCVEDEEPEEDEEPEEDEQPSGIDGSQLETVAAVKGDNEEEKHEHAEIIAAEEPNADKAPCNNDATTKTSSEDYIALLIEHDNEESDNGSEGDDADNEDPSDNPVSDHNKEKDIEIYVGGLDKNTVEDDLVNVFQQFGELKSTRIVRNSTTNKSKGFAFI...

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_021710`
TK1151 ID	TkA05G416720
OH-1004 ID	LXL04_021710
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	67.900
Protein coverage (%)	TK1151 86.689 / OH-1004 42.705 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

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_021710

Location Chr04:135661961-135666369 (+)

Description Similar to LIF2: Heterogeneous nuclear ribonucleoprotein Q

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g00830`	Transcriptional activator that binds DNA on GAGA-like motif and 5'-(C/G)ACGTG(G/T)C(A/G)-3' consensus motif in the promoters of target genes.	Control of flowering and cell fate by LIF2, an RNA binding partner of the polycomb complex component LHP1.2011 · DOI: 10.1371/journal.pone.0016592 The hnRNP-Q protein LIF2 participates in the plant immune response.2014 · DOI: 10.1371/journal.pone.0099343 The Arabidopsis hnRNP-Q Protein LIF2 and the PRC1 Subunit LHP1 Function in Concert to Regulate the Transcription of Stress-Responsive Genes.2016 · DOI: 10.1105/tpc.16.00244

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_021710 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000381 regulation of alternative mRNA splicing, via spliceosome Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0006397 mRNA processing Biological Process

GO:0008380 RNA splicing Biological Process

GO:0009617 response to bacterium Biological Process

GO:0009909 regulation of flower development Biological Process

GO:0010439 regulation of glucosinolate biosynthetic process Biological Process

GO:0010468 regulation of gene expression Biological Process

GO:0016554 cytidine to uridine editing Biological Process

GO:0032733 positive regulation of interleukin-10 production Biological Process

GO:0040029 epigenetic regulation of gene expression Biological Process

GO:0042742 defense response to bacterium Biological Process

KEGG gene cross-reference

ath:AT4G00830

cfa:403423

dre:562991

hsa:54502

pon:100174683

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.

Nucleus0.941

Rank 1 · LXL04_021710 · OH-1004

Cytoplasm0.105

Rank 2 · LXL04_021710 · OH-1004

Cell membrane0.036

Rank 3 · LXL04_021710 · OH-1004

Endoplasmic reticulum0.022

Rank 4 · LXL04_021710 · OH-1004

Plastid0.009

Rank 5 · LXL04_021710 · 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.

PF00076.29RRM_1216-284 aa

PF00076.29RRM_1297-368 aa

PF00076.29RRM_1394-462 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_021710	`PF00076.29`	RRM_1	216	284	1.3e-42	144.2
LXL04_021710	`PF00076.29`	RRM_1	297	368	1.3e-42	144.2
LXL04_021710	`PF00076.29`	RRM_1	394	462	1.3e-42	144.2

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9ASP6`	Arabidopsis thaliana	Heterogeneous nuclear ribonucleoprotein Q	26.885%	Swiss-Prot	weak database homology

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