LXL04_027986 | RubberDandelionOmics

Gene overview

LXL04_027986

Reference: OH-1004 Chr: Chr06 Coordinates: 28192572-28194883 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1416 bp · LXL04_027986|LXL04_027986|OH1004|cDNA

ATGGCGGAAGAGGACCAAACACCAGAACTCCCCAAGGAAGAACCTATGGATGTCAATCAATCTCCAGATGTTAAACCAACCGAAAGCACATCAGATTCAGAAAACACTACAAAAAAACTAAGCGCTACGGAAAGGGGGAGAGCGGATGTGGAACAGATGAGAGAAAAGTTTACGAAGCTGCTTTTAGGAGAAGATATGTCAGGTGGAGGGAAGGGGGTTGCATCAGCTTTGGCTCTATCAAATGCCATTACAAATCTTGC...

CDS

Download CDS FASTA

1416 bp · LXL04_027986|LXL04_027986|OH1004|CDS

ATGGCGGAAGAGGACCAAACACCAGAACTCCCCAAGGAAGAACCTATGGATGTCAATCAATCTCCAGATGTTAAACCAACCGAAAGCACATCAGATTCAGAAAACACTACAAAAAAACTAAGCGCTACGGAAAGGGGGAGAGCGGATGTGGAACAGATGAGAGAAAAGTTTACGAAGCTGCTTTTAGGAGAAGATATGTCAGGTGGAGGGAAGGGGGTTGCATCAGCTTTGGCTCTATCAAATGCCATTACAAATCTTGC...

Protein

Download Protein FASTA

471 aa · LXL04_027986|LXL04_027986|OH1004|PROTEIN

MAEEDQTPELPKEEPMDVNQSPDVKPTESTSDSENTTKKLSATERGRADVEQMREKFTKLLLGEDMSGGGKGVASALALSNAITNLAGTSVFGEQHKLGPMKEDSKKRWRKEVDWLLSITDHIVEFVPVQHTARDGSNMEIMVTKQRKDLLMNIPALKKLDKMLTDCLDNFKDQKEFWYVSKDANESEKGVQRNDKWWLPTVKVPPGGLSEESRKWMQKQKDCANQVLKASMAINAEVLAEMEIPESYIETLPKNARDSL...

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_027986`
TK1151 ID	TkA07G110910
OH-1004 ID	LXL04_027986
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.500
Protein coverage (%)	TK1151 95.692 / OH-1004 89.809 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

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Basic Information and Functional Annotation

Gene ID LXL04_027986

Location Chr06:28192572-28194883 (-)

Description Similar to ROPGEF11: Rop guanine nucleotide exchange factor 11

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g52240`	Guanine-nucleotide exchange factor (GEF) that acts as an activator of Rop (Rho of plants) GTPases by promoting the exchange of GDP for GTP.	A small GTPase activator protein interacts with cytoplasmic phytochromes in regulating root development.2010 · DOI: 10.1074/jbc.m110.133710
`At3g24620`	Guanine-nucleotide exchange factor (GEF) that acts as an activator of Rop (Rho of plants) GTPases by promoting the exchange of GDP for GTP.	Structural evidence for a common intermediate in small G protein-GEF reactions.2007 · DOI: 10.1016/j.molcel.2006.11.023
`At1g79860`	Guanine-nucleotide exchange factor (GEF) that acts as an activator of Rop (Rho of plants) GTPases by promoting the exchange of GDP for GTP.	A distinct mechanism regulating a pollen-specific guanine nucleotide exchange factor for the small GTPase Rop in Arabidopsis thaliana.2007 · DOI: 10.1073/pnas.0705874104
`At4g13240`	Guanine-nucleotide exchange factor (GEF) that acts as an activator of Rop (Rho of plants) GTPases by promoting the exchange of GDP for GTP.	No verified direct reference in this release
`At5g19560`	Guanine-nucleotide exchange factor (GEF) that acts as an activator of Rop (Rho of plants) GTPases by promoting the exchange of GDP for GTP.	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_027986 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009793 embryo development ending in seed dormancy Biological Process

GO:0009860 pollen tube growth Biological Process

GO:0048364 root development Biological Process

GO:0080092 regulation of pollen tube growth Biological Process

GO:0080147 root hair cell development Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0016324 apical plasma membrane Cellular Component

GO:0090406 pollen tube Cellular Component

KEGG gene cross-reference

ath:AT1G52240

ath:AT1G79860

ath:AT3G24620

ath:AT4G13240

ath:AT5G19560

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.

Nucleus0.604

Rank 1 · LXL04_027986 · OH-1004

Cytoplasm0.359

Rank 2 · LXL04_027986 · OH-1004

Cell membrane0.080

Rank 3 · LXL04_027986 · OH-1004

Mitochondrion0.069

Rank 4 · LXL04_027986 · OH-1004

Endoplasmic reticulum0.039

Rank 5 · LXL04_027986 · 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.

PF03759.19PRONE49-396 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_027986	`PF03759.19`	PRONE	49	396	2.4e-160	534.0

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
`Q9M811`	Arabidopsis thaliana	Rop guanine nucleotide exchange factor 11	60.000%	Swiss-Prot	strong database homology
`Q9LV40`	Arabidopsis thaliana	Rho guanine nucleotide exchange factor 8	64.444%	Swiss-Prot	strong database homology
`Q9CA89`	Arabidopsis thaliana	Rop guanine nucleotide exchange factor 12	58.114%	Swiss-Prot	strong database homology
`Q9SVQ3`	Arabidopsis thaliana	Rop guanine nucleotide exchange factor 9	62.438%	Swiss-Prot	strong database homology
`Q1KS66`	Arabidopsis thaliana	Rop guanine nucleotide exchange factor 10	58.128%	Swiss-Prot	strong database homology

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