LXL04_000443 | RubberDandelionOmics

Gene overview

LXL04_000443

Reference: OH-1004 Chr: Chr01 Coordinates: 8311840-8317192 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2259 bp · LXL04_000443|LXL04_000443|OH1004|cDNA

ATGTTGCTGATGGAAAAGGAAATGGAATTGGAAAAGGAATCCAATTCCATATGCTGGGAGAAGAGAATTGGAAGTACTACTGGAAAACCATTACACTACAAGGGAATTATATTCCATCACATAATTAAAGGCTTCATGGCTCAACGACAAGAGAAACAGAAGGAGAGAGAGTCACTTACCGGCGGTCGTTCAGGAAGGAAGGCGGTCGTCGATCGAAGCAGTGAAAGAGCGCCGGCGATGGAAGGAAAGGCGATGCAGAT...

CDS

Download CDS FASTA

2259 bp · LXL04_000443|LXL04_000443|OH1004|CDS

ATGTTGCTGATGGAAAAGGAAATGGAATTGGAAAAGGAATCCAATTCCATATGCTGGGAGAAGAGAATTGGAAGTACTACTGGAAAACCATTACACTACAAGGGAATTATATTCCATCACATAATTAAAGGCTTCATGGCTCAACGACAAGAGAAACAGAAGGAGAGAGAGTCACTTACCGGCGGTCGTTCAGGAAGGAAGGCGGTCGTCGATCGAAGCAGTGAAAGAGCGCCGGCGATGGAAGGAAAGGCGATGCAGAT...

Protein

Download Protein FASTA

752 aa · LXL04_000443|LXL04_000443|OH1004|PROTEIN

MLLMEKEMELEKESNSICWEKRIGSTTGKPLHYKGIIFHHIIKGFMAQRQEKQKERESLTGGRSGRKAVVDRSSERAPAMEGKAMQMVVQEGRRSFKACFTIFCKKEEKWRRAGWCRRHVMADPPGVRQVFLLESPIISGVLFSSMLSVLRVHLPSDIPIVGCELSPYVLLRRPDQTVFTDDVPESSPIEGHFLRYKWYRIQSDKKVAICSIHPSEQATLQCLGCVKAKIPIAKSYHCSPKCFSDAWQHHRVLHERAASA...

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_000443`
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_000443

Location Chr01:8311840-8317192 (-)

Description Similar to CCR4-1: Carbon catabolite repressor protein 4 homolog 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g58560`	Acts as a catalytic component of the CCR4-NOT core complex, which in the nucleus seems to be a general transcription factor, and in the cytoplasm the major mRNA deadenylase involved in mRNA turnover.	No verified direct reference in this release
`At3g58580`	Acts as a catalytic component of the CCR4-NOT core complex, which in the nucleus seems to be a general transcription factor, and in the cytoplasm the major mRNA deadenylase involved in mRNA turnover.	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_000443 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000076 DNA replication checkpoint signaling Biological Process

GO:0000289 nuclear-transcribed mRNA poly(A) tail shortening Biological Process

GO:0005986 sucrose biosynthetic process Biological Process

GO:0006260 DNA replication Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0006368 transcription elongation by RNA polymerase II Biological Process

GO:0006397 mRNA processing Biological Process

GO:0006417 regulation of translation Biological Process

GO:0007089 traversing start control point of mitotic cell cycle Biological Process

GO:0010629 negative regulation of gene expression Biological Process

GO:0019252 starch biosynthetic process Biological Process

GO:0031047 regulatory ncRNA-mediated gene silencing Biological Process

KEGG gene cross-reference

ath:AT3G58560

ath:AT3G58580

dre:553665

spo:2538913

uma:UMAG_10379

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.

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.

Cytoplasm0.387

Rank 1 · LXL04_000443 · OH-1004

Nucleus0.374

Rank 2 · LXL04_000443 · OH-1004

Cell membrane0.117

Rank 3 · LXL04_000443 · OH-1004

Golgi apparatus0.091

Rank 4 · LXL04_000443 · OH-1004

Endoplasmic reticulum0.079

Rank 5 · LXL04_000443 · 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.

PF15801.12zf-C6H2217-255 aa

PF03372.30Exo_endo_phos406-737 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_000443	`PF15801.12`	zf-C6H2	217	255	2.3e-06	28.3
LXL04_000443	`PF03372.30`	Exo_endo_phos	406	737	1.4e-25	91.0

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
`Q8W0Z9`	Arabidopsis thaliana	Carbon catabolite repressor protein 4 homolog 1	76.721%	Swiss-Prot	strong database homology
`Q9M2F8`	Arabidopsis thaliana	Carbon catabolite repressor protein 4 homolog 2	75.862%	Swiss-Prot	strong database homology

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