LXL04_035224 | RubberDandelionOmics

Gene overview

LXL04_035224

Reference: OH-1004 Chr: Chr08 Coordinates: 17908750-17913154 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1530 bp · LXL04_035224|LXL04_035224|OH1004|cDNA

ATGATGTTTGGATTGAAAGGCCCATCTGGGTTCTCAAGGTTCTCAACGGCTGAGGAAGTTACCCAAGGGATCGATGGATCGGGTCTCACTGCCATTGTCACAGAAGCATCAAGTGGTCTTGGGACTGAAACTGCACGAGTTCTTGCACTTCGTGGAGTCCATGTAGTTATGGCGGTTAGGAATATGTCAGCAGTGAAAGCTGTAAAAGAATCAATCCTAAAACAAAACCCAACTGCCAAAGTCGATGCCATGGAGCTCGA...

CDS

Download CDS FASTA

1530 bp · LXL04_035224|LXL04_035224|OH1004|CDS

ATGATGTTTGGATTGAAAGGCCCATCTGGGTTCTCAAGGTTCTCAACGGCTGAGGAAGTTACCCAAGGGATCGATGGATCGGGTCTCACTGCCATTGTCACAGAAGCATCAAGTGGTCTTGGGACTGAAACTGCACGAGTTCTTGCACTTCGTGGAGTCCATGTAGTTATGGCGGTTAGGAATATGTCAGCAGTGAAAGCTGTAAAAGAATCAATCCTAAAACAAAACCCAACTGCCAAAGTCGATGCCATGGAGCTCGA...

Protein

Download Protein FASTA

509 aa · LXL04_035224|LXL04_035224|OH1004|PROTEIN

MMFGLKGPSGFSRFSTAEEVTQGIDGSGLTAIVTEASSGLGTETARVLALRGVHVVMAVRNMSAVKAVKESILKQNPTAKVDAMELDLSSIASVNNFASDFKSSGLPLNLLIFSSYKQTFGSISLVVQIGYVGRIKLNHEPYFHRPFHSFVIPLRPTKRTLTLIIFKDHNILLLEEAIGFGKNLKRRTGSIKAMAGSKKIMSFRKPCIEDLPQAIMADILSRLPLKMLIRCKGVCKQLQNIVFDSYFADLQLSRSRVRFT...

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_035224`
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_035224

Location Chr08:17908750-17913154 (-)

Description Similar to TIC32: Short-chain dehydrogenase TIC 32, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g23430`	Involved in protein precursor import into chloroplasts.	Tic32, an essential component in chloroplast biogenesis.2004 · DOI: 10.1074/jbc.m402817200

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_035224 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0015031 protein transport Biological Process

GO:0016055 Wnt signaling pathway Biological Process

GO:0030178 negative regulation of Wnt signaling pathway Biological Process

GO:0045944 positive regulation of transcription by RNA polymerase II Biological Process

GO:0071560 cellular response to transforming growth factor beta stimulus Biological Process

GO:0005654 nucleoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005764 lysosome Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

KEGG gene cross-reference

ath:AT4G23430

bna:106397857

gga:415801

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.

Cytoplasm0.461

Rank 1 · LXL04_035224 · OH-1004

Nucleus0.346

Rank 2 · LXL04_035224 · OH-1004

Cell membrane0.148

Rank 3 · LXL04_035224 · OH-1004

Endoplasmic reticulum0.121

Rank 4 · LXL04_035224 · OH-1004

Lysosome / Vacuole0.057

Rank 5 · LXL04_035224 · 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.

PF00106.32adh_short30-112 aa

PF12937.13F-box-like208-246 aa

PF07734.19FBA_1322-472 aa

PF08268.18FBA_3323-433 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_035224	`PF00106.32`	adh_short	30	112	3.1e-08	34.0
LXL04_035224	`PF12937.13`	F-box-like	208	246	3.7e-07	30.5
LXL04_035224	`PF07734.19`	FBA_1	322	472	7e-13	49.0
LXL04_035224	`PF08268.18`	FBA_3	323	433	3.8e-09	36.7

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
`A2RVM0`	Arabidopsis thaliana	Short-chain dehydrogenase TIC 32, chloroplastic	72.727%	Swiss-Prot	weak database homology

JBrowse

View in Genome Browser

Gene Card