LXL04_014664 | RubberDandelionOmics

Gene overview

LXL04_014664

Reference: OH-1004 Chr: Chr03 Coordinates: 54541853-54545335 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1875 bp · LXL04_014664|LXL04_014664|OH1004|cDNA

ATGGCGATTGATGACGACCAGTCCAAAACCTGCGTCGTCCTCGGAGGCAGAAGCTTCATTGGAAGATGTCTCGTCGCCAGGCTATTGAAACTAGGTAATTGGATCGTACGAGTTGCCGATTCCGCTCAGACCCTCCAACTCGATCCTTCCGAGTCCAAGCACGACTCGCCTCTTAACCGTGCTCTCTCCACTGGTCGTGCTTCCTATGCGCACGTTGATGTTCGCCACAAAAGTACAATCATTAACGCTATTGAAGGTTC...

CDS

Download CDS FASTA

1875 bp · LXL04_014664|LXL04_014664|OH1004|CDS

ATGGCGATTGATGACGACCAGTCCAAAACCTGCGTCGTCCTCGGAGGCAGAAGCTTCATTGGAAGATGTCTCGTCGCCAGGCTATTGAAACTAGGTAATTGGATCGTACGAGTTGCCGATTCCGCTCAGACCCTCCAACTCGATCCTTCCGAGTCCAAGCACGACTCGCCTCTTAACCGTGCTCTCTCCACTGGTCGTGCTTCCTATGCGCACGTTGATGTTCGCCACAAAAGTACAATCATTAACGCTATTGAAGGTTC...

Protein

Download Protein FASTA

624 aa · LXL04_014664|LXL04_014664|OH1004|PROTEIN

MAIDDDQSKTCVVLGGRSFIGRCLVARLLKLGNWIVRVADSAQTLQLDPSESKHDSPLNRALSTGRASYAHVDVRHKSTIINAIEGSEVVFYIDEIDSCNHDFHLGYSIIVQGESSLHFISCYVVIQNSIYYLTYNHIPLGAKNVINACRRCKVHRLIYNSTADVVIDKSHDICSGNETLLYSSKFKNLYSELKAQAEAFVLLANDIDGLLTCVLRPSNVFGPGDKILLPALIEVAQSGWAKFIIGSDQTISDFTYVENV...

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_014664`
TK1151 ID	TkA02G405980
OH-1004 ID	LXL04_014664
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	95.500
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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_014664

Location Chr03:54541853-54545335 (+)

Description Similar to 3BETAHSD/D3: 3beta-hydroxysteroid-dehydrogenase/decarboxylase isoform 3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g43420`	3beta-hydroxysteroid-dehydrogenase/decarboxylase isoform 3.	No verified direct reference in this release
`At2g26260`	3beta-hydroxysteroid-dehydrogenase/decarboxylase involved in sterol synthesis.	Molecular and enzymatic characterizations of novel bifunctional 3beta-hydroxysteroid dehydrogenases/C-4 decarboxylases from Arabidopsis thaliana.2006 · DOI: 10.1074/jbc.m604431200 Overexpression of 3β-hydroxysteroid dehydrogenases/C-4 decarboxylases causes growth defects possibly due to abnormal auxin transport in Arabidopsis.2012 · DOI: 10.1007/s10059-012-0102-6
`At1g47290`	3beta-hydroxysteroid-dehydrogenase/decarboxylase involved in sterol synthesis.	Molecular and enzymatic characterizations of novel bifunctional 3beta-hydroxysteroid dehydrogenases/C-4 decarboxylases from Arabidopsis thaliana.2006 · DOI: 10.1074/jbc.m604431200 Overexpression of 3β-hydroxysteroid dehydrogenases/C-4 decarboxylases causes growth defects possibly due to abnormal auxin transport in Arabidopsis.2012 · DOI: 10.1007/s10059-012-0102-6

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_014664 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006695 cholesterol biosynthetic process Biological Process

GO:0007224 smoothened signaling pathway Biological Process

GO:0008203 cholesterol metabolic process Biological Process

GO:0016126 sterol biosynthetic process Biological Process

GO:0033489 cholesterol biosynthetic process via desmosterol Biological Process

GO:0033490 cholesterol biosynthetic process via lathosterol Biological Process

GO:0036197 zymosterol biosynthetic process Biological Process

GO:0060918 auxin transport Biological Process

GO:0099402 plant organ development Biological Process

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005789 endoplasmic reticulum membrane Cellular Component

GO:0005811 lipid droplet Cellular Component

KEGG gene cross-reference

ath:AT1G47290

ath:AT2G26260

ath:AT2G43420

bta:616694

rno:309262

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.

Endoplasmic reticulum0.388

Rank 1 · LXL04_014664 · OH-1004

Golgi apparatus0.175

Rank 2 · LXL04_014664 · OH-1004

Nucleus0.150

Rank 3 · LXL04_014664 · OH-1004

Cytoplasm0.149

Rank 4 · LXL04_014664 · OH-1004

Cell membrane0.123

Rank 5 · LXL04_014664 · 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.

PF01073.263Beta_HSD12-133 aa

PF01073.263Beta_HSD136-314 aa

PF01370.28Epimerase140-269 aa

PF02453.24Reticulon413-579 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_014664	`PF01073.26`	3Beta_HSD	12	133	1.9e-62	211.5
LXL04_014664	`PF01073.26`	3Beta_HSD	136	314	1.9e-62	211.5
LXL04_014664	`PF01370.28`	Epimerase	140	269	1.5e-19	71.1
LXL04_014664	`PF02453.24`	Reticulon	413	579	4.8e-28	98.8

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
`A9X4U2`	Arabidopsis thaliana	3beta-hydroxysteroid-dehydrogenase/decarboxylase isoform 3	43.311%	Swiss-Prot	moderate database homology
`Q67ZE1`	Arabidopsis thaliana	3beta-hydroxysteroid-dehydrogenase/decarboxylase isoform 2	34.315%	Swiss-Prot	moderate database homology
`Q9FX01`	Arabidopsis thaliana	3beta-hydroxysteroid-dehydrogenase/decarboxylase isoform 1	38.710%	Swiss-Prot	moderate database homology

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