LXL04_003475 | RubberDandelionOmics

Gene overview

LXL04_003475

Reference: OH-1004 Chr: Chr01 Coordinates: 80612110-80617041 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1401 bp · LXL04_003475|LXL04_003475|OH1004|cDNA

ATGGATCATGTGATTGGTGGAAAGTTTAAGCTTGGGAGGAAGATTGGCAGTGGATCTTTCGGCGAGCTCTATTTGGGAGTAAATGTACAAACTGGAGAAGAAGTTGCGGTCAAGCTGGAATCTACAAAGACTAAGCACCCTCAACTTCACTATGAGTCCAAATTGTACATGCTTCTTCAAGGAGGAACTGGCGTGCCCCACCTGAAATGGTTTGGTGTTGAAGGGGAGTACAATGCTATGGCTATAGACCTTCTTGGACC...

CDS

Download CDS FASTA

1401 bp · LXL04_003475|LXL04_003475|OH1004|CDS

ATGGATCATGTGATTGGTGGAAAGTTTAAGCTTGGGAGGAAGATTGGCAGTGGATCTTTCGGCGAGCTCTATTTGGGAGTAAATGTACAAACTGGAGAAGAAGTTGCGGTCAAGCTGGAATCTACAAAGACTAAGCACCCTCAACTTCACTATGAGTCCAAATTGTACATGCTTCTTCAAGGAGGAACTGGCGTGCCCCACCTGAAATGGTTTGGTGTTGAAGGGGAGTACAATGCTATGGCTATAGACCTTCTTGGACC...

Protein

Download Protein FASTA

466 aa · LXL04_003475|LXL04_003475|OH1004|PROTEIN

MDHVIGGKFKLGRKIGSGSFGELYLGVNVQTGEEVAVKLESTKTKHPQLHYESKLYMLLQGGTGVPHLKWFGVEGEYNAMAIDLLGPSLEDLFNYCNRKLTLKSVLMLADQLINRVEYMHSRGFLHRDIKPDNFLMGLGRKANQVYIIDYGLAKKFRDLQTHRHIPYRENKNLTGTARYASANTHLGIEQSRRDDLESLGYVLMYFLRGSLPWQGLKAGTKKQKYDKISEKKMLTPIEVLCKSYPSEFTQYFHYCRSLRF...

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_003475`
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_003475

Location Chr01:80612110-80617041 (-)

Description Similar to CKL11: Casein kinase 1-like protein 11

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g14340`	Casein kinases are operationally defined by their preferential utilization of acidic proteins such as caseins as substrates.	No verified direct reference in this release
`At3g23340`	Casein kinases are operationally defined by their preferential utilization of acidic proteins such as caseins as substrates.	No verified direct reference in this release
`At5g43320`	Casein kinases are operationally defined by their preferential utilization of acidic proteins such as caseins as substrates.	No verified direct reference in this release
`At4g28540`	Casein kinases are operationally defined by their preferential utilization of acidic proteins such as caseins as substrates.	Arabidopsis casein kinase 1-like 6 contains a microtubule-binding domain and affects the organization of cortical microtubules,2008 · DOI: 10.1104/pp.108.129346 Versatile casein kinase 1: multiple locations and functions.2009 · DOI: 10.1104/pp.108.129346

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0622100`	Casein kinases are operationally defined by their preferential utilization of acidic proteins such as caseins as substrates.	Roles of OsCKI1, a rice casein kinase I, in root development and plant hormone sensitivity.2003 · DOI: 10.1046/j.1365-313x.2003.01866.x Rice LTG1 is involved in adaptive growth and fitness under low ambient temperature.2014 · DOI: 10.1111/tpj.12487

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_003475 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0001558 regulation of cell growth Biological Process

GO:0006897 endocytosis Biological Process

GO:0007165 signal transduction Biological Process

GO:0009409 response to cold Biological Process

GO:0009741 response to brassinosteroid Biological Process

GO:0009826 unidimensional cell growth Biological Process

GO:0009850 auxin metabolic process Biological Process

GO:0016310 phosphorylation Biological Process

GO:0043622 cortical microtubule organization Biological Process

GO:0046777 protein autophosphorylation Biological Process

GO:0048364 root development Biological Process

GO:0051510 regulation of unidimensional cell growth Biological Process

KEGG gene cross-reference

ath:AT3G23340

ath:AT4G14340

ath:AT4G28540

ath:AT5G43320

dosa:Os02g0622100

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.

Cytoplasm0.598

Rank 1 · LXL04_003475 · OH-1004

Nucleus0.440

Rank 2 · LXL04_003475 · OH-1004

Cell membrane0.075

Rank 3 · LXL04_003475 · OH-1004

Mitochondrion0.047

Rank 4 · LXL04_003475 · OH-1004

Endoplasmic reticulum0.036

Rank 5 · LXL04_003475 · 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.

PF00069.32Pkinase10-228 aa

PF07714.24PK_Tyr_Ser-Thr10-270 aa

PF17667.8Pkinase_fungal118-206 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_003475	`PF00069.32`	Pkinase	10	228	4.3e-25	89.3
LXL04_003475	`PF07714.24`	PK_Tyr_Ser-Thr	10	270	5.8e-14	52.7
LXL04_003475	`PF17667.8`	Pkinase_fungal	118	206	2.2e-07	30.7

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
`Q39050`	Arabidopsis thaliana	Casein kinase 1-like protein 11	72.766%	Swiss-Prot	strong database homology
`Q9LW62`	Arabidopsis thaliana	Casein kinase 1-like protein 10	73.191%	Swiss-Prot	strong database homology
`Q9LSX4`	Arabidopsis thaliana	Casein kinase 1-like protein 8	69.897%	Swiss-Prot	strong database homology
`Q8LPJ1`	Arabidopsis thaliana	Casein kinase 1-like protein 6	68.973%	Swiss-Prot	strong database homology
`Q6K9N1`	Oryza sativa subsp. japonica	Casein kinase 1	70.402%	Swiss-Prot	strong database homology

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