LXL04_039661 | RubberDandelionOmics

Gene overview

LXL04_039661

Reference: OH-1004 Chr: JAJTUU010000021.1 Coordinates: 344097-346425 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

849 bp · LXL04_039661|LXL04_039661|OH1004|cDNA

ATGAAGTTCATCTTTTCCTTGATTAAATACATTTGGAGGTTATGTTACAGGAAGATGCAACCATGTGGTAACAGGAGGCAAAAGAAAGACATATTTATTGCCGTTTATCTCTTTGTATTAGGTCAAAAACCAGGCATAAATCATACAGATAATTTGAAGTTTTCCTacttttcttcttctttgttTCAGGTGGGTCTTTGTTTTCTAAATTCTTATTATTTCTTATTAATTGTGTTGGCTGTATTGCACATCCACTCTGT...

CDS

Download CDS FASTA

849 bp · LXL04_039661|LXL04_039661|OH1004|CDS

ATGAAGTTCATCTTTTCCTTGATTAAATACATTTGGAGGTTATGTTACAGGAAGATGCAACCATGTGGTAACAGGAGGCAAAAGAAAGACATATTTATTGCCGTTTATCTCTTTGTATTAGGTCAAAAACCAGGCATAAATCATACAGATAATTTGAAGTTTTCCTACTTTTCTTCTTCTTTGTTTCAGGTGGGTCTTTGTTTTCTAAATTCTTATTATTTCTTATTAATTGTGTTGGCTGTATTGCACATCCACTCTGT...

Protein

Download Protein FASTA

282 aa · LXL04_039661|LXL04_039661|OH1004|PROTEIN

MKFIFSLIKYIWRLCYRKMQPCGNRRQKKDIFIAVYLFVLGQKPGINHTDNLKFSYFSSSLFQVGLCFLNSYYFLLIVLAVLHIHSVVEECEIIELMQQIDPKTRKPMKKKVLFVKNGAAVICRIQVTNMICIEKFSEFQQLGRFTLRTEGQLLEVVLTKPQSDRKSDNSSPHYSGPHPNYIPQNVYGGFSSNPYGGSVGPRYGVTSSFQQPMIYGRGPVQGGMQRVSMVLPDGQIGQQPGAHVTPPDQGYWRKRPRVGV...

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_039661`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_039661

Location JAJTUU010000021.1:344097-346425 (-)

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

View annotation sources

Functional annotation source: OH1004 · LXL04_039661 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0006412 translation Biological Process

GO:0006415 translational termination Biological Process

GO:0006449 regulation of translational termination Biological Process

GO:0006479 protein methylation 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:0032790 ribosome disassembly Biological Process

GO:0040029 epigenetic regulation of gene expression Biological Process

KEGG gene cross-reference

ath:AT4G00830

hsa:23708

mmu:14852

mmu:14853

pon:100174020

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.

Nucleus0.460

Rank 1 · LXL04_039661 · OH-1004

Cytoplasm0.400

Rank 2 · LXL04_039661 · OH-1004

Mitochondrion0.117

Rank 3 · LXL04_039661 · OH-1004

Endoplasmic reticulum0.094

Rank 4 · LXL04_039661 · OH-1004

Cell membrane0.062

Rank 5 · LXL04_039661 · 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.

PF22594.3GTP-eEF1A_C80-152 aa

PF03143.24GTP_EFTU_D380-152 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_039661	`PF22594.3`	GTP-eEF1A_C	80	152	2.8e-20	73.3
LXL04_039661	`PF03143.24`	GTP_EFTU_D3	80	152	2.1e-12	48.0

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9ASP6`	Arabidopsis thaliana	Heterogeneous nuclear ribonucleoprotein Q	48.673%	Swiss-Prot	weak database homology

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