LXL04_018271 | RubberDandelionOmics

Gene overview

LXL04_018271

Reference: OH-1004 Chr: Chr04 Coordinates: 10142726-10144514 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1297 bp · LXL04_018271|LXL04_018271|OH1004|cDNA

ATGAGTCATGCGTTATCTCTCTAAATCTATCGTCTCTGTAAAATCTCTGATTTCAAGAAAACCTTACTTCTCCACCATGTCAATAAACCTCAAATCTCCAGTCTTTGCTGGTAACCCGATAAGATCAAAAACCCCCAAATCAACTGACCCATTTTCACCCACATCAGCCTTTCAAACCCTTAAGATTCTTCTTTCAGGTCAAACCCATATCCAAGAAccatcttcccctaaattcaAGGTCCTCCCTTTCAGAAAGGGCC...

CDS

Download CDS FASTA

1290 bp · LXL04_018271|LXL04_018271|OH1004|CDS

ATGCGTTATCTCTCTAAATCTATCGTCTCTGTAAAATCTCTGATTTCAAGAAAACCTTACTTCTCCACCATGTCAATAAACCTCAAATCTCCAGTCTTTGCTGGTAACCCGATAAGATCAAAAACCCCCAAATCAACTGACCCATTTTCACCCACATCAGCCTTTCAAACCCTTAAGATTCTTCTTTCAGGTCAAACCCATATCCAAGAACCATCTTCCCCTAAATTCAAGGTCCTCCCTTTCAGAAAGGGCCGACCGTT...

Protein

Download Protein FASTA

429 aa · LXL04_018271|LXL04_018271|OH1004|PROTEIN

MRYLSKSIVSVKSLISRKPYFSTMSINLKSPVFAGNPIRSKTPKSTDPFSPTSAFQTLKILLSGQTHIQEPSSPKFKVLPFRKGRPLAGSTGDSVNKWHLGWLNFGDFKGVLEGSELKLSDDLLVYLGCESKEEKEDDSVVYWAIDVSESNSLVEKLGNRQFCFVELRTLMVATDWADDSAMGELAIAGHARSLLEWHNTSRFCGSCGEILVPTEAGRRKQCINDSCKKRIYPRVDPVVIMLVIDKENDRALLSKQSRFV...

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_018271`
TK1151 ID	TkA08G016310
OH-1004 ID	LXL04_018271
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.300
Protein coverage (%)	TK1151 100.000 / OH-1004 96.270 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_018271

Location Chr04:10142726-10144514 (+)

Description Similar to NUDT19: Nudix hydrolase 19, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g20070`	mRNA decapping enzyme that specifically removes the nicotinamide adenine dinucleotide (NAD) cap from a subset of mRNAs by hydrolyzing the diphosphate linkage to produce nicotinamide mononucleotide (NMN) and 5' monophosphate mRNA.	Molecular characterization of organelle-type Nudix hydrolases in Arabidopsis.2008 · DOI: 10.1104/pp.108.128413

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_018271 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006402 mRNA catabolic process Biological Process

GO:0006742 NADP+ catabolic process Biological Process

GO:0019677 NAD+ catabolic process Biological Process

GO:0032922 circadian regulation of gene expression Biological Process

GO:0110155 NAD-cap decapping Biological Process

GO:0110156 mRNA methylguanosine-cap decapping Biological Process

GO:1901847 nicotinate metabolic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005777 peroxisome Cellular Component

GO:0005782 peroxisomal matrix Cellular Component

GO:0005829 cytosol Cellular Component

KEGG gene cross-reference

ath:AT5G20070

bta:617720

hsa:83594

mmu:67993

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.

Mitochondrion0.604

Rank 1 · LXL04_018271 · OH-1004

Plastid0.449

Rank 2 · LXL04_018271 · OH-1004

Cytoplasm0.064

Rank 3 · LXL04_018271 · OH-1004

Nucleus0.045

Rank 4 · LXL04_018271 · OH-1004

Peroxisome0.028

Rank 5 · LXL04_018271 · 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.

PF09296.18NUDIX-like117-197 aa

PF00293.35NUDIX238-349 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_018271	`PF09296.18`	NUDIX-like	117	197	4.4e-06	28.1
LXL04_018271	`PF00293.35`	NUDIX	238	349	3.3e-18	66.7

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
`Q94A82`	Arabidopsis thaliana	Nudix hydrolase 19, chloroplastic	66.502%	Swiss-Prot	strong database homology

JBrowse

View in Genome Browser

Gene Card