LXL04_009440 | RubberDandelionOmics

Gene overview

LXL04_009440

Reference: OH-1004 Chr: Chr02 Coordinates: 126609073-126619882 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

5706 bp · LXL04_009440|LXL04_009440|OH1004|cDNA

ATGGCGAAAGTTTCTGATAATTGGGGAAGGCTGGTCCGTGCAACTCTTCGGAGAGAGCAGCTACGAGTTGCCGGACAAAGTCATGAGAGAAAAGCCAGTGGACTTGCTAGTGCAGTTCCTGATTCGCTTCAACGGACCACAAATATCAATGCGATCTTGCAAGCTGCTGATGAGATTCAAGCGGAGGATGCGCACGTTGCTAGGATATTGTGTGAGCAGGCGTATTCCATGGCTCAAAATTTGGACCCAAATAGTGATGG...

CDS

Download CDS FASTA

5706 bp · LXL04_009440|LXL04_009440|OH1004|CDS

ATGGCGAAAGTTTCTGATAATTGGGGAAGGCTGGTCCGTGCAACTCTTCGGAGAGAGCAGCTACGAGTTGCCGGACAAAGTCATGAGAGAAAAGCCAGTGGACTTGCTAGTGCAGTTCCTGATTCGCTTCAACGGACCACAAATATCAATGCGATCTTGCAAGCTGCTGATGAGATTCAAGCGGAGGATGCGCACGTTGCTAGGATATTGTGTGAGCAGGCGTATTCCATGGCTCAAAATTTGGACCCAAATAGTGATGG...

Protein

Download Protein FASTA

1901 aa · LXL04_009440|LXL04_009440|OH1004|PROTEIN

MAKVSDNWGRLVRATLRREQLRVAGQSHERKASGLASAVPDSLQRTTNINAILQAADEIQAEDAHVARILCEQAYSMAQNLDPNSDGRGVLQFKTGLMSVIKQKLAKKDGGRIDRNRDAQHLWDFYQRYKRKHRIDEIQKEEQRMLESGTFTTDMGGLGLRSQETKKVFTTLRALVEVMEALSKDAAPDGVGRYITEEIKRLKKTDKGLSGDLTPYNIVPLEAPSLSNAIGFYPEVRAAVSALRYHAEFPRLPSNFEVPA...

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_009440`
TK1151 ID	TkA01G203540
OH-1004 ID	LXL04_009440
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	86.400
Protein coverage (%)	TK1151 39.196 / OH-1004 4.261 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_009440

Location Chr02:126609073-126619882 (+)

Description Similar to CALS10: Callose synthase 10

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g36850`	Involved in sporophytic and gametophytic development.	Dual function of Arabidopsis glucan synthase-like genes GSL8 and GSL10 in male gametophyte development and plant growth.2008 · DOI: 10.1111/j.1365-313x.2008.03462.x Dysregulation of cell-to-cell connectivity and stomatal patterning by loss-of-function mutation in Arabidopsis chorus (glucan synthase-like 8).2010 · DOI: 10.1242/dev.049197
`At3g07160`	Involved in sporophytic and gametophytic development.	Dual function of Arabidopsis glucan synthase-like genes GSL8 and GSL10 in male gametophyte development and plant growth.2008 · DOI: 10.1111/j.1365-313x.2008.03462.x
`At2g13680`	Required for the formation of the callose wall separating the tetraspores (interstitial wall) and surrounding the pollen mother cells (peripheral wall).	Callose synthase (CalS5) is required for exine formation during microgametogenesis and for pollen viability in Arabidopsis.2005 · DOI: 10.1111/j.1365-313x.2005.02379.x Callose (beta-1,3 glucan) is essential for Arabidopsis pollen wall patterning, but not tube growth.2005 · DOI: 10.1186/1471-2229-5-22
`At5g13000`	Involved in callose synthesis at the forming cell plate during cytokinesis.	No verified direct reference in this release
`At1g05570`	Involved in callose synthesis at the forming cell plate during cytokinesis.	An Arabidopsis Callose Synthase, GSL5, Is Required for Wound and Papillary Callose Formation.2003 · DOI: 10.1105/tpc.016097

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_009440 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006075 (1->3)-beta-D-glucan biosynthetic process Biological Process

GO:0008360 regulation of cell shape Biological Process

GO:0009555 pollen development Biological Process

GO:0009556 microsporogenesis Biological Process

GO:0009846 pollen germination Biological Process

GO:0009860 pollen tube growth Biological Process

GO:0010208 pollen wall assembly Biological Process

GO:0048589 developmental growth Biological Process

GO:0051592 response to calcium ion Biological Process

GO:0052543 callose deposition in cell wall Biological Process

GO:0055047 generative cell mitosis Biological Process

GO:0071555 cell wall organization Biological Process

KEGG gene cross-reference

ath:AT1G05570

ath:AT2G13680

ath:AT2G36850

ath:AT3G07160

ath:AT5G13000

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.

Cell membrane0.613

Rank 1 · LXL04_009440 · OH-1004

Endoplasmic reticulum0.218

Rank 2 · LXL04_009440 · OH-1004

Golgi apparatus0.122

Rank 3 · LXL04_009440 · OH-1004

Cytoplasm0.121

Rank 4 · LXL04_009440 · OH-1004

Lysosome / Vacuole0.083

Rank 5 · LXL04_009440 · 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.

PF14288.12FKS1_dom1349-458 aa

PF25968.1CALS1845-1021 aa

PF02364.22Glucan_synthase1029-1719 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_009440	`PF14288.12`	FKS1_dom1	349	458	5.7e-42	143.3
LXL04_009440	`PF25968.1`	CALS1	845	1021	4.6e-46	157.5
LXL04_009440	`PF02364.22`	Glucan_synthase	1029	1719	3.7e-232	773.7

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
`Q9SJM0`	Arabidopsis thaliana	Callose synthase 10	75.223%	Swiss-Prot	strong database homology
`Q9SFU6`	Arabidopsis thaliana	Callose synthase 9	61.354%	Swiss-Prot	strong database homology
`Q3B724`	Arabidopsis thaliana	Callose synthase 5	47.141%	Swiss-Prot	moderate database homology
`Q9LXT9`	Arabidopsis thaliana	Callose synthase 3	45.613%	Swiss-Prot	moderate database homology
`Q9AUE0`	Arabidopsis thaliana	Callose synthase 1	44.598%	Swiss-Prot	moderate database homology

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