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_029271
Reference: OH-1004 Chr: Chr06 Coordinates: 85677126-85678610 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1485 bp · LXL04_029271|LXL04_029271|OH1004|cDNA

ATGGAGACTGTACCTTTCAGGCACCCACGTCAGATTATCCCTTTATCATCACAACCCTTACAACAACAACTATCTCAACATCGACAAATTGAAAAAACCCCAAAACAATTCCGATCATACCATGATGCCCTCGATTTATCGCCAAGAGCAAGAACTCTTTGCGAAATACTTGCTAGGGTTTTTCCGGCGGAGGTTGAAACCGCATTATCAGTGACAGGAATGAACCCGGAGCCTGAAGTGGTAGAAGAAGTGTTGAAGTT...

CDS

Download CDS FASTA

1485 bp · LXL04_029271|LXL04_029271|OH1004|CDS

ATGGAGACTGTACCTTTCAGGCACCCACGTCAGATTATCCCTTTATCATCACAACCCTTACAACAACAACTATCTCAACATCGACAAATTGAAAAAACCCCAAAACAATTCCGATCATACCATGATGCCCTCGATTTATCGCCAAGAGCAAGAACTCTTTGCGAAATACTTGCTAGGGTTTTTCCGGCGGAGGTTGAAACCGCATTATCAGTGACAGGAATGAACCCGGAGCCTGAAGTGGTAGAAGAAGTGTTGAAGTT...

Protein

Download Protein FASTA

494 aa · LXL04_029271|LXL04_029271|OH1004|PROTEIN

METVPFRHPRQIIPLSSQPLQQQLSQHRQIEKTPKQFRSYHDALDLSPRARTLCEILARVFPAEVETALSVTGMNPEPEVVEEVLKFSYGSPEATLIFFKWVGLKQKLWPSTWNLIIDLLGKNQMFERMWDAIRSMKLDGYVLSLTTFVSVFGSYCEAGRFNEAITAFNMMEKYGVKPDVVVLNSLLNAICGEDSQKTELAVEFFEKIKTQIPPDADSFAILLQGLEKERNVAKAKTMFGEMVIRVGWSPENMSAYEAFL...

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_029271
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_029271
LocationChr06:85677126-85678610 (+)
DescriptionSimilar to At1g77360: Pentatricopeptide repeat-containing protein At1g77360, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g77360 Pentatricopeptide repeat-containing protein At1g77360, mitochondrial. No verified direct reference in this release
At1g71060 Pentatricopeptide repeat-containing protein At1g71060, mitochondrial. No verified direct reference in this release
At3g62540 Pentatricopeptide repeat-containing protein At3g62540, mitochondrial. No verified direct reference in this release
At5g14820 Pentatricopeptide repeat-containing protein At5g14820, mitochondrial. No verified direct reference in this release
At3g62470 Pentatricopeptide repeat-containing protein At3g62470, mitochondrial. 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_029271 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006397 mRNA processing Biological Process
GO:0005737 cytoplasm Cellular Component
GO:0005739 mitochondrion Cellular Component
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT1G71060
ath:AT1G77360
ath:AT3G62540
ath:AT5G14820
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.

Mitochondrion0.684
Rank 1 · LXL04_029271 · OH-1004
Plastid0.218
Rank 2 · LXL04_029271 · OH-1004
Nucleus0.066
Rank 3 · LXL04_029271 · OH-1004
Cytoplasm0.034
Rank 4 · LXL04_029271 · OH-1004
Cell membrane0.010
Rank 5 · LXL04_029271 · 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.

PF29070.1MSC6_N121-238 aa
PF23276.3TPR_24121-240 aa
PF13041.13PPR_2147-191 aa
PF13041.13PPR_2178-226 aa
PF17177.11PPR_long294-465 aa
PF13812.13PPR_3314-366 aa
PF12854.14PPR_1319-349 aa
PF13041.13PPR_2321-368 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_029271PF29070.1MSC6_N1212388.8e-1762.0
LXL04_029271PF23276.3TPR_241212403.4e-1660.1
LXL04_029271PF13041.13PPR_21471911.4e-38131.5
LXL04_029271PF13041.13PPR_21782261.4e-38131.5
LXL04_029271PF17177.11PPR_long2944655e-1039.8
LXL04_029271PF13812.13PPR_33143665e-1556.1
LXL04_029271PF12854.14PPR_13193492.7e-1969.3
LXL04_029271PF13041.13PPR_23213681.4e-38131.5
LXL04_029271PF13041.13PPR_23563921.4e-38131.5

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
Q9FVX2Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g77360, mitochondrial29.067%Swiss-Protweak database homology
Q9C9A2Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g71060, mitochondrial28.795%Swiss-Protweak database homology
Q3EAF8Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g62540, mitochondrial26.757%Swiss-Protweak database homology
Q9LEQ7Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g14820, mitochondrial26.757%Swiss-Protweak database homology
Q9LZP3Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g62470, mitochondrial26.304%Swiss-Protweak database homology

JBrowse

View in Genome Browser