RubberDandelionOmics Rubber Dandelion Multi-omics Website
More
Transcriptome Expression Annotation Rubber Pathway TF Prediction Targets Protein Network Resequencing Tools Downloads
ZH EN

How to use this page

Gene Card

Enter a TK1151 or OH-1004 gene ID to view sequences, annotations and analyses in the corresponding reference genome.
Flanking length, max 10000 bp
Examples TkA01G624900 LXL04_000258

Gene overview

LXL04_038941
Reference: OH-1004 Chr: Chr09 Coordinates: 53737296-53740154 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1266 bp · LXL04_038941|LXL04_038941|OH1004|cDNA

ATGCTCTCTCTGCGCCTAGGTCGCAGATTTAGAACTTACACCACCATTCCAGCCTCCACTACATCGACTTCTAAAACTAAAACTACTTTGAGCGCAAAGGATATCAAGAAACCCTCAACTTTAGAGGAACCCGCCCTTATTAAGCTCAAGGCAGAACGAGACCCCGAAAAATTATTTCATTTGTTCAAGGCTAATGCCCATAACCGCCTGGTTATAGAAAATCTGGTCGCATTTGAAGACACGATTTCCAGGCTAGCAGG...

CDS

Download CDS FASTA

1266 bp · LXL04_038941|LXL04_038941|OH1004|CDS

ATGCTCTCTCTGCGCCTAGGTCGCAGATTTAGAACTTACACCACCATTCCAGCCTCCACTACATCGACTTCTAAAACTAAAACTACTTTGAGCGCAAAGGATATCAAGAAACCCTCAACTTTAGAGGAACCCGCCCTTATTAAGCTCAAGGCAGAACGAGACCCCGAAAAATTATTTCATTTGTTCAAGGCTAATGCCCATAACCGCCTGGTTATAGAAAATCTGGTCGCATTTGAAGACACGATTTCCAGGCTAGCAGG...

Protein

Download Protein FASTA

421 aa · LXL04_038941|LXL04_038941|OH1004|PROTEIN

MLSLRLGRRFRTYTTIPASTTSTSKTKTTLSAKDIKKPSTLEEPALIKLKAERDPEKLFHLFKANAHNRLVIENLVAFEDTISRLAGARRFDYIEQLLEHQKALPQGRREGFIMRIISLYGKAGMVNHAINTFKGMHLYGCPRTVKSLNAALKVLAHSGDLDAFESFLSHVHCQFDVNLDIISMNIIIDALCRMGIPDKAYIIMGEMEKSGITPDVITYTTLISSFYKLNRAEIGNGLWNLMVMKGCLPNLATFNARIQF...

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.

Download Gene (CDS) Download Protein

ID Mapping

Input IDLXL04_038941
Source versionOH-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 IDLXL04_038941
LocationChr09:53737296-53740154 (+)
DescriptionSimilar to At1g80150: Pentatricopeptide repeat-containing protein At1g80150, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g80150 Pentatricopeptide repeat-containing protein At1g80150, mitochondrial. No verified direct reference in this release
At4g36680 Small ribosomal subunit protein mL103 (rPPR7). No verified direct reference in this release
At1g55890 Small ribosomal subunit protein mS78 (rPPR3a). No verified direct reference in this release
At1g61870 May be involved in translation through its association with polysomes. No verified direct reference in this release
At3g13160 Small ribosomal subunit protein mS79 (rPPR3b). 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_038941 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006396 RNA processing Biological Process
GO:0007005 mitochondrion organization Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0005743 mitochondrial inner membrane Cellular Component
GO:0005829 cytosol Cellular Component
GO:0005840 ribosome Cellular Component
GO:0005886 plasma membrane Cellular Component
GO:1990904 ribonucleoprotein complex Cellular Component
GO:0000166 nucleotide binding Molecular Function
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT1G55890
ath:AT1G61870
ath:AT1G80150
ath:AT3G13160
ath:AT4G36680
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.

Mitochondrion0.813
Rank 1 · LXL04_038941 · OH-1004
Plastid0.121
Rank 2 · LXL04_038941 · OH-1004
Nucleus0.056
Rank 3 · LXL04_038941 · OH-1004
Cytoplasm0.035
Rank 4 · LXL04_038941 · OH-1004
Cell membrane0.012
Rank 5 · LXL04_038941 · 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.

PF13812.13PPR_3176-226 aa
PF13041.13PPR_2180-227 aa
PF01535.27PPR183-212 aa
PF13812.13PPR_3203-263 aa
PF12854.14PPR_1211-226 aa
PF13041.13PPR_2215-256 aa
PF17177.11PPR_long239-352 aa
PF13041.13PPR_2249-298 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_038941PF13812.13PPR_31762261.1e-1764.5
LXL04_038941PF13041.13PPR_21802271.6e-42144.1
LXL04_038941PF01535.27PPR1832123.6e-2484.0
LXL04_038941PF13812.13PPR_32032631.1e-1764.5
LXL04_038941PF12854.14PPR_12112263.8e-2897.6
LXL04_038941PF13041.13PPR_22152561.6e-42144.1
LXL04_038941PF17177.11PPR_long2393523e-0937.3
LXL04_038941PF13041.13PPR_22492981.6e-42144.1
LXL04_038941PF12854.14PPR_12813083.8e-2897.6
LXL04_038941PF13041.13PPR_22843211.6e-42144.1
LXL04_038941PF01535.27PPR2873163.6e-2484.0
LXL04_038941PF12854.14PPR_13163433.8e-2897.6
LXL04_038941PF13041.13PPR_23193661.6e-42144.1

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

ProteinOrganismDescriptionIdentityDatabaseConfidence
Q8GW57Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g80150, mitochondrial56.091%Swiss-Protstrong database homology
Q9M065Arabidopsis thalianaSmall ribosomal subunit protein mL103 (rPPR7)33.156%Swiss-Protmoderate database homology
Q9LG23Arabidopsis thalianaSmall ribosomal subunit protein mS78 (rPPR3a)31.398%Swiss-Protmoderate database homology
Q8LE47Arabidopsis thalianaSmall ribosomal subunit protein mS86 (rPPR1)30.328%Swiss-Protmoderate database homology
Q9LK57Arabidopsis thalianaSmall ribosomal subunit protein mS79 (rPPR3b)29.815%Swiss-Protweak database homology

JBrowse

View in Genome Browser