LXL04_014117 | RubberDandelionOmics

Gene overview

LXL04_014117

Reference: OH-1004 Chr: Chr03 Coordinates: 42258418-42268560 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

6708 bp · LXL04_014117|LXL04_014117|OH1004|cDNA

ATGGCCTTGACCAGCAACAAAGGGGAAGACGATGTTGTTTCCAGAGACGGTTCTTCTTCTATTCAAGAAGATACCAAGCACAGTGTAGAGGCTGGAGAAGACTGTGATCTGAGCTGTCGGTGGCTGGCAGCTCACCCCCACCCCACACTCCCCCTCTCTGATGCATACTTGTTAACTACTCTTCTCCGTCATTGTTTCTCATATCTTGGTCTTCTTCACTTATCTGCCACAAAATTCGTCAAATGTACTGAAACATCAAA...

CDS

Download CDS FASTA

6708 bp · LXL04_014117|LXL04_014117|OH1004|CDS

ATGGCCTTGACCAGCAACAAAGGGGAAGACGATGTTGTTTCCAGAGACGGTTCTTCTTCTATTCAAGAAGATACCAAGCACAGTGTAGAGGCTGGAGAAGACTGTGATCTGAGCTGTCGGTGGCTGGCAGCTCACCCCCACCCCACACTCCCCCTCTCTGATGCATACTTGTTAACTACTCTTCTCCGTCATTGTTTCTCATATCTTGGTCTTCTTCACTTATCTGCCACAAAATTCGTCAAATGTACTGAAACATCAAA...

Protein

Download Protein FASTA

2235 aa · LXL04_014117|LXL04_014117|OH1004|PROTEIN

MALTSNKGEDDVVSRDGSSSIQEDTKHSVEAGEDCDLSCRWLAAHPHPTLPLSDAYLLTTLLRHCFSYLGLLHLSATKFVKCTETSNLSVSPTLFPVKLATKVSRRYSAGSNGINQERNGNGASEREPMTPHSLTKMGSRERSSMEDPDGTLSSVAHCIEQLRQKSSSSQDQEFSLKQLLDLINTREGAFSAVSSHSQAVPVLVSLLRSGSLGVKIQAATVLGSLCKENELRVKVLLGGCIPPLLALLKSKEGQITAANT...

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_014117`
TK1151 ID	TkA02G451940
OH-1004 ID	LXL04_014117
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	99.600
Protein coverage (%)	TK1151 100.000 / OH-1004 94.273 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_014117

Location Chr03:42258418-42268560 (-)

Description Similar to CSI1: Protein CELLULOSE SYNTHASE INTERACTIVE 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g22125`	Regulator of the microtubular cytoskeleton.	POM-POM2/cellulose synthase interacting1 is essential for the functional association of cellulose synthase and microtubules in Arabidopsis.2012 · DOI: 10.1105/tpc.111.093575 The Arabidopsis ARCP protein, CSI1, which is required for microtubule stability, is necessary for root and anther development.2012 · DOI: 10.1105/tpc.111.095059 Impaired cellulose synthase guidance leads to stem torsion and twists phyllotactic patterns in Arabidopsis.2013 · DOI: 10.1016/j.cub.2013.04.013 Cellulose synthase INTERACTIVE3 regulates cellulose biosynthesis in both a microtubule-dependent and microtubule-independent manner in Arabidopsis.2013 · DOI: 10.1105/tpc.113.116715 CESA TRAFFICKING INHIBITOR inhibits cellulose deposition and interferes with the trafficking of cellulose synthase complexes and their associated proteins KORRIGAN1 and POM2/CELLULOSE SYNTHASE INTERACTIVE PROTEIN1.2015 · DOI: 10.1104/pp.114.249003
`At1g77460`	Regulator of the microtubular cytoskeleton (By similarity).	Cellulose synthase INTERACTIVE3 regulates cellulose biosynthesis in both a microtubule-dependent and microtubule-independent manner in Arabidopsis.2013 · DOI: 10.1105/tpc.113.116715
`At1g44120`	Regulator of the microtubular cytoskeleton.	No verified direct reference in this release
`At5g67340`	Functions as an E3 ubiquitin ligase.	No verified direct reference in this release
`At3g46510`	Functions as an E3 ubiquitin ligase.	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_014117 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0007166 cell surface receptor signaling pathway Biological Process

GO:0008360 regulation of cell shape Biological Process

GO:0009414 response to water deprivation Biological Process

GO:0009826 unidimensional cell growth Biological Process

GO:0009833 plant-type primary cell wall biogenesis Biological Process

GO:0009901 anther dehiscence Biological Process

GO:0010208 pollen wall assembly Biological Process

GO:0010215 cellulose microfibril organization Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0030244 cellulose biosynthetic process Biological Process

GO:0042742 defense response to bacterium Biological Process

GO:0043622 cortical microtubule organization Biological Process

KEGG gene cross-reference

ath:AT1G44120

ath:AT1G77460

ath:AT2G22125

ath:AT3G46510

ath:AT5G67340

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.

Cytoplasm0.466

Rank 1 · LXL04_014117 · OH-1004

Nucleus0.347

Rank 2 · LXL04_014117 · OH-1004

Cell membrane0.230

Rank 3 · LXL04_014117 · OH-1004

Endoplasmic reticulum0.068

Rank 4 · LXL04_014117 · OH-1004

Golgi apparatus0.051

Rank 5 · LXL04_014117 · 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.

PF25598.2ARM_PUB141-400 aa

PF24768.2ARM_ARMC5154-253 aa

PF00514.30Arm196-226 aa

PF24768.2ARM_ARMC5269-443 aa

PF24768.2ARM_ARMC5518-682 aa

PF25598.2ARM_PUB579-694 aa

PF00514.30Arm615-654 aa

PF24768.2ARM_ARMC51363-1556 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_014117	`PF25598.2`	ARM_PUB	141	400	1.4e-24	87.7
LXL04_014117	`PF24768.2`	ARM_ARMC5	154	253	1.1e-35	124.2
LXL04_014117	`PF00514.30`	Arm	196	226	3.9e-42	141.7
LXL04_014117	`PF24768.2`	ARM_ARMC5	269	443	1.1e-35	124.2
LXL04_014117	`PF24768.2`	ARM_ARMC5	518	682	1.1e-35	124.2
LXL04_014117	`PF25598.2`	ARM_PUB	579	694	1.4e-24	87.7
LXL04_014117	`PF00514.30`	Arm	615	654	3.9e-42	141.7
LXL04_014117	`PF24768.2`	ARM_ARMC5	1363	1556	1.1e-35	124.2
LXL04_014117	`PF00168.37`	C2	2114	2203	1.2e-15	58.3

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
`F4IIM1`	Arabidopsis thaliana	Protein CELLULOSE SYNTHASE INTERACTIVE 1	71.826%	Swiss-Prot	strong database homology
`F4I718`	Arabidopsis thaliana	Protein CELLULOSE SYNTHASE INTERACTIVE 3	44.689%	Swiss-Prot	moderate database homology
`Q9C6Y4`	Arabidopsis thaliana	Protein CELLULOSE SYNTHASE INTERACTIVE 2	37.688%	Swiss-Prot	moderate database homology
`Q5XEZ8`	Arabidopsis thaliana	U-box domain-containing protein 2	27.419%	Swiss-Prot	weak database homology
`Q9SNC6`	Arabidopsis thaliana	U-box domain-containing protein 13	30.052%	Swiss-Prot	weak database homology

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