LXL04_025554 | RubberDandelionOmics

Gene overview

LXL04_025554

Reference: OH-1004 Chr: Chr05 Coordinates: 113421014-113423420 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2013 bp · LXL04_025554|LXL04_025554|OH1004|cDNA

ATGGATGCACAAGAATCAGGGAACCCTAAACCACCACAATCGTCACAAGAAAGTAATGATGGGTCAACTCGCCACCATGGTAAGTCCAGATCACACTGGGGAATCTCCCACGCAGTTCATGGTGTGGGATTTGTTGCCAAAAAGGTGGTTAACAATAGATTAACAGACTCCATATGGTCTTTAAAAAGGAGCGGTAGTAGTAGTACTACCAGTTCAAGTTCCCATGTCCCATCTGATACATCATCTACCAAAAAAGAGAA...

CDS

Download CDS FASTA

2013 bp · LXL04_025554|LXL04_025554|OH1004|CDS

ATGGATGCACAAGAATCAGGGAACCCTAAACCACCACAATCGTCACAAGAAAGTAATGATGGGTCAACTCGCCACCATGGTAAGTCCAGATCACACTGGGGAATCTCCCACGCAGTTCATGGTGTGGGATTTGTTGCCAAAAAGGTGGTTAACAATAGATTAACAGACTCCATATGGTCTTTAAAAAGGAGCGGTAGTAGTAGTACTACCAGTTCAAGTTCCCATGTCCCATCTGATACATCATCTACCAAAAAAGAGAA...

Protein

Download Protein FASTA

670 aa · LXL04_025554|LXL04_025554|OH1004|PROTEIN

MDAQESGNPKPPQSSQESNDGSTRHHGKSRSHWGISHAVHGVGFVAKKVVNNRLTDSIWSLKRSGSSSTTSSSSHVPSDTSSTKKENLPLESLSDQTSSKPPLNVSDEQATNVPTSAKPSHEKHKKEKEVLDKSENSNSNLNSNLKPPDGSHVNKTNPNVVDDSDTSKHSGTLKPPNSSHVRPVNQHRWHNIVVGSNVIDHPENLKPPDGPHIKPATQQLWPSTVGSSVLSKNINPPEDISKTSIIPDRKMLPESSSDPT...

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_025554`
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_025554

Location Chr05:113421014-113423420 (-)

Description Similar to AUG8: AUGMIN subunit 8

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g30710`	Contributes to the assembly of the acentrosomal spindle and phragmoplast microtubule arrays as part of the augmin complex.	Characterization of the Arabidopsis augmin complex uncovers its critical function in the assembly of the acentrosomal spindle and phragmoplast microtubule arrays.2012 · DOI: 10.1105/tpc.112.096610
`At3g19570`	Probable microtubule-associated peroxisomal protein required for chloroplast biogenesis and for the formation of the prolamellar body and prothylakoids in etioplasts.	No verified direct reference in this release
`At1g49890`	QWRF motif-containing protein 2.	No verified direct reference in this release
`At5g43160`	QWRF motif-containing protein 9.	No verified direct reference in this release
`At2g44190`	Microtubule-associated protein required for seed development and for microtubule function in the endosperm.	ENDOSPERM DEFECTIVE1 Is a Novel Microtubule-Associated Protein Essential for Seed Development in Arabidopsis.2009 · DOI: 10.1105/tpc.108.061812 Endosperm cellularization defines an important developmental transition for embryo development.2012 · DOI: 10.1242/dev.077057

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_025554 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000226 microtubule cytoskeleton organization Biological Process

GO:0009658 chloroplast organization Biological Process

GO:0009960 endosperm development Biological Process

GO:0010342 endosperm cellularization Biological Process

GO:0048316 seed development Biological Process

GO:0051225 spindle assembly Biological Process

GO:0051301 cell division Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005777 peroxisome Cellular Component

GO:0005874 microtubule Cellular Component

GO:0005880 nuclear microtubule Cellular Component

KEGG gene cross-reference

ath:AT1G49890

ath:AT2G44190

ath:AT3G19570

ath:AT4G30710

ath:AT5G43160

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.

Cytoplasm0.544

Rank 1 · LXL04_025554 · OH-1004

Nucleus0.289

Rank 2 · LXL04_025554 · OH-1004

Cell membrane0.254

Rank 3 · LXL04_025554 · OH-1004

Endoplasmic reticulum0.049

Rank 4 · LXL04_025554 · OH-1004

Golgi apparatus0.037

Rank 5 · LXL04_025554 · 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.

PF04484.19QWRF376-636 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_025554	`PF04484.19`	QWRF	376	636	1.8e-45	156.7

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
`Q9SUH5`	Arabidopsis thaliana	AUGMIN subunit 8	30.309%	Swiss-Prot	moderate database homology
`Q8GXD9`	Arabidopsis thaliana	Protein SNOWY COTYLEDON 3	35.648%	Swiss-Prot	weak database homology
`Q94AI1`	Arabidopsis thaliana	QWRF motif-containing protein 2	36.574%	Swiss-Prot	weak database homology
`F4K4M0`	Arabidopsis thaliana	QWRF motif-containing protein 9	31.288%	Swiss-Prot	weak database homology
`O80588`	Arabidopsis thaliana	Protein ENDOSPERM DEFECTIVE 1	28.293%	Swiss-Prot	weak database homology

JBrowse

View in Genome Browser

Gene Card