LXL04_022696 | RubberDandelionOmics

Gene overview

LXL04_022696

Reference: OH-1004 Chr: Chr05 Coordinates: 5215195-5219127 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2049 bp · LXL04_022696|LXL04_022696|OH1004|cDNA

GGGGCGAATATGGCGATTAAGAGGGGGAATTCAAATATGGGTGTCCGCAGGAACAATGGCGGAGGTGGATCTTGGATGTCAACTGTGGTTCTTGTGTTGTTTTTAGTTCTTTCTCCTGTGGGGTTCTTCGTTGGGCGTAGGGTTTACTCTACTTCTTCAATTGATTGGAGAGCAAGACTGGCTTTAATGCACGTCCCGTCTCTTTTTACAAAAAAAGTTATTGATGTCATCAAAGCCAATACTAATGATTTAGGACCTTT...

CDS

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2040 bp · LXL04_022696|LXL04_022696|OH1004|CDS

ATGGCGATTAAGAGGGGGAATTCAAATATGGGTGTCCGCAGGAACAATGGCGGAGGTGGATCTTGGATGTCAACTGTGGTTCTTGTGTTGTTTTTAGTTCTTTCTCCTGTGGGGTTCTTCGTTGGGCGTAGGGTTTACTCTACTTCTTCAATTGATTGGAGAGCAAGACTGGCTTTAATGCACGTCCCGTCTCTTTTTACAAAAAAAGTTATTGATGTCATCAAAGCCAATACTAATGATTTAGGACCTTTGAGCTTTGA...

Protein

Download Protein FASTA

679 aa · LXL04_022696|LXL04_022696|OH1004|PROTEIN

MAIKRGNSNMGVRRNNGGGGSWMSTVVLVLFLVLSPVGFFVGRRVYSTSSIDWRARLALMHVPSLFTKKVIDVIKANTNDLGPLSFDSFRKNNLSASWILSGQEYVSPTEILETVKKQTPTEKEEKLFYDGHSQSVDTPAKLARRQLREKRRETRAAELVKKDDDVIIKLENAAIQRSKSVDSAVLGKYSIWRKENDNDNTDTTVRLVRDQIIMARVYKSIALMKNNTKLARELQNQIKESHRSLGDAAADADLNRSVSE...

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_022696`
TK1151 ID	TkA06G464090
OH-1004 ID	LXL04_022696
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.800
Protein coverage (%)	TK1151 99.334 / OH-1004 87.923 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_022696

Location Chr05:5215195-5219127 (+)

Description Similar to GAUT1: Polygalacturonate 4-alpha-galacturonosyltransferase

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g61130`	Involved in pectin biosynthesis.	Functional identification of an Arabidopsis pectin biosynthetic homogalacturonan galacturonosyltransferase.2006 · DOI: 10.1073/pnas.0600120103
`At4g38270`	May be involved in pectin and/or xylans biosynthesis in cell walls.	No verified direct reference in this release
`At5g47780`	May be involved in pectin and/or xylans biosynthesis in cell walls.	No verified direct reference in this release
`At2g46480`	May be involved in pectin and/or xylans biosynthesis in cell walls.	No verified direct reference in this release
`At3g25140`	Alpha-1-4-D-galacturonosyltransferase involved in homogalacturonan (HGA) synthesis, a class of pectin which plays a role in cell adhesion.	QUASIMODO1 is expressed in vascular tissue of Arabidopsis thaliana inflorescence stems, and affects homogalacturonan and xylan biosynthesis.2005 · DOI: 10.1007/s00425-005-0008-z

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_022696 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0007155 cell adhesion Biological Process

GO:0010289 homogalacturonan biosynthetic process Biological Process

GO:0045489 pectin biosynthetic process Biological Process

GO:0071555 cell wall organization Biological Process

GO:0000137 Golgi cis cisterna Cellular Component

GO:0000138 Golgi trans cisterna Cellular Component

GO:0000139 Golgi membrane Cellular Component

GO:0000325 plant-type vacuole Cellular Component

GO:0005576 extracellular region Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005768 endosome Cellular Component

KEGG gene cross-reference

ath:AT2G46480

ath:AT3G25140

ath:AT3G61130

ath:AT4G38270

ath:AT5G47780

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.

Golgi apparatus0.811

Rank 1 · LXL04_022696 · OH-1004

Endoplasmic reticulum0.083

Rank 2 · LXL04_022696 · OH-1004

Cell membrane0.059

Rank 3 · LXL04_022696 · OH-1004

Cytoplasm0.056

Rank 4 · LXL04_022696 · OH-1004

Extracellular0.052

Rank 5 · LXL04_022696 · 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.

PF25557.3GAUT_1201-277 aa

PF01501.27Glyco_transf_8321-633 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_022696	`PF25557.3`	GAUT_1	201	277	1.5e-29	102.7
LXL04_022696	`PF01501.27`	Glyco_transf_8	321	633	1.5e-83	281.0

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9LE59`	Arabidopsis thaliana	Polygalacturonate 4-alpha-galacturonosyltransferase	74.554%	Swiss-Prot	strong database homology
`Q0WQD2`	Arabidopsis thaliana	Probable galacturonosyltransferase 3	52.418%	Swiss-Prot	strong database homology
`Q93ZX7`	Arabidopsis thaliana	Probable galacturonosyltransferase 4	65.132%	Swiss-Prot	moderate database homology
`Q9ZPZ1`	Arabidopsis thaliana	Putative galacturonosyltransferase 2	57.061%	Swiss-Prot	strong database homology
`Q9LSG3`	Arabidopsis thaliana	Galacturonosyltransferase 8	53.364%	Swiss-Prot	moderate database homology

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