LXL04_025558 | RubberDandelionOmics

Gene overview

LXL04_025558

Reference: OH-1004 Chr: Chr05 Coordinates: 113548812-113555937 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

5487 bp · LXL04_025558|LXL04_025558|OH1004|cDNA

ATGACCCACCGGCAGCGTCCTCCGCCGTCGCCGGAACCCGACCTATCTGACGTATCCCCCTATAACATCATCCCAATCCACAATTTGCTAGCAGATCACCCATCCCTCCGCTTCCCAGAAGTCCGTGCCGCCACCGCTGCATTACGAGCTGTTGGTGACCTCCGCAGACCACCCTTCATCCCATGGCAACCTCACTACGACCTCCTCGACTGGCTCGGCGCCTTCTTCGGTTTCCAATCCGACAACGTTTCGAACCAGCG...

CDS

Download CDS FASTA

5487 bp · LXL04_025558|LXL04_025558|OH1004|CDS

ATGACCCACCGGCAGCGTCCTCCGCCGTCGCCGGAACCCGACCTATCTGACGTATCCCCCTATAACATCATCCCAATCCACAATTTGCTAGCAGATCACCCATCCCTCCGCTTCCCAGAAGTCCGTGCCGCCACCGCTGCATTACGAGCTGTTGGTGACCTCCGCAGACCACCCTTCATCCCATGGCAACCTCACTACGACCTCCTCGACTGGCTCGGCGCCTTCTTCGGTTTCCAATCCGACAACGTTTCGAACCAGCG...

Protein

Download Protein FASTA

1828 aa · LXL04_025558|LXL04_025558|OH1004|PROTEIN

MTHRQRPPPSPEPDLSDVSPYNIIPIHNLLADHPSLRFPEVRAATAALRAVGDLRRPPFIPWQPHYDLLDWLGAFFGFQSDNVSNQREHLVLHLANAQMRLQPPPDNIDTLDPSVLRRFRRKLLSNYTHWCSFLGRKSNIWISDSRRQYSASDYRRELLYVSLYLLIWGESANLRFIPECICYIFHHMAMELNRILEDYIDENTGRPVLPSISGENAFLNRVVKPIYDTVKAEVANSRNGTAPHSNWRNYDDINEYFWSR...

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_025558`
TK1151 ID	TkA06G051570
OH-1004 ID	LXL04_025558
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.800
Protein coverage (%)	TK1151 98.288 / OH-1004 94.201 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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_025558

Location Chr05:113548812-113555937 (+)

Description Similar to CALS12: Callose synthase 12

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g03550`	Involved in sporophytic and gametophytic development.	An Arabidopsis callose synthase.2002 · DOI: 10.1023/a:1015558231400 An Arabidopsis Callose Synthase, GSL5, Is Required for Wound and Papillary Callose Formation.2003 · DOI: 10.1105/tpc.016097 Two callose synthases, GSL1 and GSL5, play an essential and redundant role in plant and pollen development and in fertility.2005 · DOI: 10.1007/s11103-005-4526-7
`At4g04970`	Required the formation of the callose wall separating the tetraspores (interstitial wall), but not for the callose wall surrounding the pollen mother cells (peripheral wall).	Two callose synthases, GSL1 and GSL5, play an essential and redundant role in plant and pollen development and in fertility.2005 · DOI: 10.1007/s11103-005-4526-7
`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
`At2g31960`	Involved in callose synthesis at the forming cell plate during cytokinesis.	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_025558 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0002758 innate immune response-activating signaling pathway Biological Process

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

GO:0006952 defense response Biological Process

GO:0007623 circadian rhythm Biological Process

GO:0008360 regulation of cell shape Biological Process

GO:0009555 pollen development Biological Process

GO:0009556 microsporogenesis Biological Process

GO:0009620 response to fungus Biological Process

GO:0009846 pollen germination Biological Process

GO:0009860 pollen tube growth Biological Process

GO:0009863 salicylic acid mediated signaling pathway Biological Process

GO:0009965 leaf morphogenesis Biological Process

KEGG gene cross-reference

ath:AT2G13680

ath:AT2G31960

ath:AT4G03550

ath:AT4G04970

ath:AT5G13000

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

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 membrane0.645

Rank 1 · LXL04_025558 · OH-1004

Endoplasmic reticulum0.194

Rank 2 · LXL04_025558 · OH-1004

Cytoplasm0.108

Rank 3 · LXL04_025558 · OH-1004

Golgi apparatus0.098

Rank 4 · LXL04_025558 · OH-1004

Lysosome / Vacuole0.087

Rank 5 · LXL04_025558 · 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_dom1157-269 aa

PF25968.1CALS1684-862 aa

PF02364.22Glucan_synthase870-1648 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_025558	`PF14288.12`	FKS1_dom1	157	269	4.8e-45	153.1
LXL04_025558	`PF25968.1`	CALS1	684	862	6.2e-32	111.5
LXL04_025558	`PF02364.22`	Glucan_synthase	870	1648	2.8e-257	856.8

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
`Q9ZT82`	Arabidopsis thaliana	Callose synthase 12	72.691%	Swiss-Prot	strong database homology
`Q9S9U0`	Arabidopsis thaliana	Callose synthase 11	67.662%	Swiss-Prot	strong database homology
`Q3B724`	Arabidopsis thaliana	Callose synthase 5	47.548%	Swiss-Prot	moderate database homology
`Q9LXT9`	Arabidopsis thaliana	Callose synthase 3	46.276%	Swiss-Prot	moderate database homology
`Q9SL03`	Arabidopsis thaliana	Callose synthase 2	45.949%	Swiss-Prot	moderate database homology

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