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_023361
Reference: OH-1004 Chr: Chr05 Coordinates: 35260068-35261924 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1584 bp · LXL04_023361|LXL04_023361|OH1004|cDNA

ATGATTTTTTTCGCAGTTCCATCGAGTATTCTTCGCCCAAAGAGTACTTGCAAAAGAACTTACTTAATGAGCCAATTCATATCTCtttcttcaccttcttctgTTCAATCACTAGATATGTCGGAAGAAAACAATCACCATTGCCCAGATTATACTGAATTGAGGAGCAATATGCAGAATTTAGCAAAGTCCGGTGGTATTACTAAAGCACTACAGGCATTCCGTCTTATGAGAACCGCCGGACCTGGTAAGCCTACAGT...

CDS

Download CDS FASTA

1584 bp · LXL04_023361|LXL04_023361|OH1004|CDS

ATGATTTTTTTCGCAGTTCCATCGAGTATTCTTCGCCCAAAGAGTACTTGCAAAAGAACTTACTTAATGAGCCAATTCATATCTCTTTCTTCACCTTCTTCTGTTCAATCACTAGATATGTCGGAAGAAAACAATCACCATTGCCCAGATTATACTGAATTGAGGAGCAATATGCAGAATTTAGCAAAGTCCGGTGGTATTACTAAAGCACTACAGGCATTCCGTCTTATGAGAACCGCCGGACCTGGTAAGCCTACAGT...

Protein

Download Protein FASTA

527 aa · LXL04_023361|LXL04_023361|OH1004|PROTEIN

MIFFAVPSSILRPKSTCKRTYLMSQFISLSSPSSVQSLDMSEENNHHCPDYTELRSNMQNLAKSGGITKALQAFRLMRTAGPGKPTVYDYNSLVNCYLKSENVCLHDLSALYTEMSTLGLYPNASTFNTFLKGLNLLGESKIALWVTIEMCNYAFTPSFSSLSNLLKKCSDSMDLEEAITVLDLMMGLFKEASNCLNKMATDACYYPTVRTYTTIIKCWCDNGRVQEALSLLSQMEKRGLNPDIVTYNIILRALSNQNMV...

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_023361
TK1151 IDTkA05G449810
OH-1004 IDLXL04_023361
Relationship / confidenceNon Reciprocal Best Hit / Complex relationship
Protein identity (%)30.200
Protein coverage (%)TK1151 14.802 / OH-1004 15.750
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 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_023361
LocationChr05:35260068-35261924 (+)
DescriptionSimilar to At1g62910: Pentatricopeptide repeat-containing protein At1g62910
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g62910 Pentatricopeptide repeat-containing protein At1g62910. No verified direct reference in this release
At1g63080 Pentatricopeptide repeat-containing protein At1g63080, mitochondrial. No verified direct reference in this release
At1g64100 Pentatricopeptide repeat-containing protein At1g64100. No verified direct reference in this release
At3g04760 Pentatricopeptide repeat-containing protein At3g04760, chloroplastic. No verified direct reference in this release
At1g62930 Pentatricopeptide repeat-containing protein At1g62930, chloroplastic. 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_023361 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0090617 mitochondrial mRNA 5'-end processing Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
KEGG gene cross-reference
ath:AT1G62910
ath:AT1G63080
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.

Mitochondrion0.720
Rank 1 · LXL04_023361 · OH-1004
Plastid0.146
Rank 2 · LXL04_023361 · OH-1004
Nucleus0.065
Rank 3 · LXL04_023361 · OH-1004
Cytoplasm0.035
Rank 4 · LXL04_023361 · OH-1004
Cell membrane0.011
Rank 5 · LXL04_023361 · 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.

PF17177.11PPR_long52-186 aa
PF13041.13PPR_285-134 aa
PF12854.14PPR_1206-236 aa
PF13041.13PPR_2207-255 aa
PF13812.13PPR_3208-254 aa
PF01535.27PPR211-240 aa
PF23276.3TPR_24212-274 aa
PF29070.1MSC6_N231-373 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_023361PF17177.11PPR_long521861.5e-2280.8
LXL04_023361PF13041.13PPR_2851342.7e-62207.4
LXL04_023361PF12854.14PPR_12062365e-41138.8
LXL04_023361PF13041.13PPR_22072552.7e-62207.4
LXL04_023361PF13812.13PPR_32082541.5e-32112.2
LXL04_023361PF01535.27PPR2112401.7e-39132.0
LXL04_023361PF23276.3TPR_242122741.2e-2177.7
LXL04_023361PF29070.1MSC6_N2313731.5e-1454.6
LXL04_023361PF12854.14PPR_12382675e-41138.8
LXL04_023361PF13041.13PPR_22422852.7e-62207.4
LXL04_023361PF13041.13PPR_23133602.7e-62207.4
LXL04_023361PF13812.13PPR_33313591.5e-32112.2
LXL04_023361PF12854.14PPR_13433735e-41138.8
LXL04_023361PF01535.27PPR3503761.7e-39132.0
LXL04_023361PF13041.13PPR_23784222.7e-62207.4
LXL04_023361PF17177.11PPR_long3844931.5e-2280.8

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

ProteinOrganismDescriptionIdentityDatabaseConfidence
Q9LQ16Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g6291027.273%Swiss-Protweak database homology
Q9CAN5Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g63080, mitochondrial27.607%Swiss-Protweak database homology
Q9SH60Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g6410026.316%Swiss-Protweak database homology
Q9SR00Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g04760, chloroplastic25.373%Swiss-Protweak database homology
Q9LQ14Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g62930, chloroplastic26.444%Swiss-Protweak database homology

JBrowse

View in Genome Browser