LXL04_012965 | RubberDandelionOmics

Gene overview

LXL04_012965

Reference: OH-1004 Chr: Chr03 Coordinates: 21652878-21656281 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2022 bp · LXL04_012965|LXL04_012965|OH1004|cDNA

ATGCCAGAGCTGCGCAGTGGAGCACGCCGTTCCCGTGCTTCTCCTGTAGTTGCCAAGAAGAGAGGTGTCTGCACGCCGAAAAACAAACGATCGGAGCAATTGGTTGGTAGGTACGTCAAAACTCGAGCGGCTGCGGCGAGGTTTGCTGAGGTGAACCAACAGAAGAATCTGAAGCGGAAGACCAAAGGAAAAGAAGCAGTCAAAGAAGTACAGATGGGGGATAGCGGTGGATTGAGCGCTAACAAGGTTACCGGACAAGA...

CDS

Download CDS FASTA

2022 bp · LXL04_012965|LXL04_012965|OH1004|CDS

ATGCCAGAGCTGCGCAGTGGAGCACGCCGTTCCCGTGCTTCTCCTGTAGTTGCCAAGAAGAGAGGTGTCTGCACGCCGAAAAACAAACGATCGGAGCAATTGGTTGGTAGGTACGTCAAAACTCGAGCGGCTGCGGCGAGGTTTGCTGAGGTGAACCAACAGAAGAATCTGAAGCGGAAGACCAAAGGAAAAGAAGCAGTCAAAGAAGTACAGATGGGGGATAGCGGTGGATTGAGCGCTAACAAGGTTACCGGACAAGA...

Protein

Download Protein FASTA

673 aa · LXL04_012965|LXL04_012965|OH1004|PROTEIN

MPELRSGARRSRASPVVAKKRGVCTPKNKRSEQLVGRYVKTRAAAARFAEVNQQKNLKRKTKGKEAVKEVQMGDSGGLSANKVTGQEEEGNTAPFPDRVQVGGSPHYKVERKLGKGGFGQVFVGRRVTGGTERISGPGATEVALKFEHKNSKGCSYGPPYEWQVYNTLGGSHGVPKVHYKGKQGEYYVMVMDMLGPSLWDVWNSSGQSMSSEMVSCIAVEALSILDKLHSRGYVHGDVKPENFLLGQPSTSQEKKLFLVD...

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_012965`
TK1151 ID	TkA02G525980
OH-1004 ID	LXL04_012965
Relationship / confidence	Multi Candidate From Tk1151 / Complex relationship
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 89.450 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_012965

Location Chr03:21652878-21656281 (+)

Description Similar to HD16: Casein kinase 1-like protein HD16

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

No hit for this species in the current source table.

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0793500`	Casein kinases are operationally defined by their preferential utilization of acidic proteins such as caseins as substrates.	Hd16, a gene for casein kinase I, is involved in the control of rice flowering time by modulating the day-length response.2013 · DOI: 10.1111/tpj.12268

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_012965 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006468 protein phosphorylation Biological Process

GO:0006897 endocytosis Biological Process

GO:0007165 signal transduction Biological Process

GO:0009740 gibberellic acid mediated signaling pathway Biological Process

GO:0009908 flower development Biological Process

GO:0010476 gibberellin mediated signaling pathway Biological Process

GO:0016055 Wnt signaling pathway Biological Process

GO:0030100 regulation of endocytosis Biological Process

GO:0032436 positive regulation of proteasomal ubiquitin-dependent protein catabolic process Biological Process

GO:0045104 intermediate filament cytoskeleton organization Biological Process

GO:0048586 regulation of long-day photoperiodism, flowering Biological Process

GO:0051301 cell division Biological Process

KEGG gene cross-reference

cel:CELE_C03C10.1

dosa:Os03g0793500

spo:2541341

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.

Cytoplasm0.503

Rank 1 · LXL04_012965 · OH-1004

Nucleus0.454

Rank 2 · LXL04_012965 · OH-1004

Cell membrane0.108

Rank 3 · LXL04_012965 · OH-1004

Mitochondrion0.092

Rank 4 · LXL04_012965 · OH-1004

Endoplasmic reticulum0.068

Rank 5 · LXL04_012965 · 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.

PF00069.32Pkinase107-342 aa

PF07714.24PK_Tyr_Ser-Thr108-378 aa

PF17667.8Pkinase_fungal211-317 aa

PF24289.2DUF7477406-673 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_012965	`PF00069.32`	Pkinase	107	342	4.6e-17	63.0
LXL04_012965	`PF07714.24`	PK_Tyr_Ser-Thr	108	378	3e-07	30.8
LXL04_012965	`PF17667.8`	Pkinase_fungal	211	317	1.1e-08	34.9
LXL04_012965	`PF24289.2`	DUF7477	406	673	5.4e-162	538.0

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q852L0`	Oryza sativa subsp. japonica	Casein kinase 1-like protein HD16	77.349%	Swiss-Prot	strong database homology

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