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_014731
Reference: OH-1004 Chr: Chr03 Coordinates: 55884465-55886645 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2067 bp · LXL04_014731|LXL04_014731|OH1004|cDNA

ATGGCAACACAACAAGGGTTACTCTCGCCAACAACGTCTCTCCGAACAAGAACTATAGCAGCTTCAGCTTCTCTTCTAAAACCTCTTTCTACAGTCAATTCCCTCCAAACCCCATCAACGTTACAAGAAGCAGACCACACCGACACATTCTTAATCGAGAAGATTTTAATGCGTTTAAAACAGGGTAAGTTCAATTCCTCCAAAGATTATCTATTTCAGTTAACCCCATCTATTTTTATCGATGTTATTCATCAGTGCCG...

CDS

Download CDS FASTA

2067 bp · LXL04_014731|LXL04_014731|OH1004|CDS

ATGGCAACACAACAAGGGTTACTCTCGCCAACAACGTCTCTCCGAACAAGAACTATAGCAGCTTCAGCTTCTCTTCTAAAACCTCTTTCTACAGTCAATTCCCTCCAAACCCCATCAACGTTACAAGAAGCAGACCACACCGACACATTCTTAATCGAGAAGATTTTAATGCGTTTAAAACAGGGTAAGTTCAATTCCTCCAAAGATTATCTATTTCAGTTAACCCCATCTATTTTTATCGATGTTATTCATCAGTGCCG...

Protein

Download Protein FASTA

688 aa · LXL04_014731|LXL04_014731|OH1004|PROTEIN

MATQQGLLSPTTSLRTRTIAASASLLKPLSTVNSLQTPSTLQEADHTDTFLIEKILMRLKQGKFNSSKDYLFQLTPSIFIDVIHQCRHNSQLGQNFVDTIASNHPKFKHSLPSLSAAVHILTRNRRLSDAQAFLLRMIRKSGVSRTMIVDCLISTYDKCQSSPIVFDLLIRTYVQARKLREGVEAFKLLTNRGISVPINGCNSVLGGLVKIGWFDLAWEVYNDLLSKGIQLNIYTMNIMVNAICKDHNFKKVKPFLMEFE...

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_014731
TK1151 IDTkA02G401300
OH-1004 IDLXL04_014731
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)100.000
Protein coverage (%)TK1151 33.268 / OH-1004 24.855
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_014731
LocationChr03:55884465-55886645 (-)
DescriptionSimilar to At5g01110: Pentatricopeptide repeat-containing protein At5g01110
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g01110 Pentatricopeptide repeat-containing protein At5g01110. No verified direct reference in this release
At1g05670 Pentatricopeptide repeat-containing protein At1g05670, mitochondrial. No verified direct reference in this release
At5g39710 Pentatricopeptide repeat-containing protein At5g39710. No verified direct reference in this release
At5g59900 Putative pentatricopeptide repeat-containing protein At5g59900. No verified direct reference in this release
At2g15630 Pentatricopeptide repeat-containing protein At2g15630, 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_014731 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0005739 mitochondrion Cellular Component
GO:0005783 endoplasmic reticulum Cellular Component
GO:0005794 Golgi apparatus Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT1G05670
ath:AT5G01110
ath:AT5G39710
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.

Mitochondrion0.818
Rank 1 · LXL04_014731 · OH-1004
Plastid0.103
Rank 2 · LXL04_014731 · OH-1004
Nucleus0.047
Rank 3 · LXL04_014731 · OH-1004
Cytoplasm0.032
Rank 4 · LXL04_014731 · OH-1004
Cell membrane0.010
Rank 5 · LXL04_014731 · 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.

PF13041.13PPR_2201-245 aa
PF17177.11PPR_long217-353 aa
PF13812.13PPR_3257-311 aa
PF12854.14PPR_1262-294 aa
PF13041.13PPR_2266-315 aa
PF01535.27PPR269-299 aa
PF23276.3TPR_24269-350 aa
PF29070.1MSC6_N270-345 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_014731PF13041.13PPR_22012451.1e-152496.7
LXL04_014731PF17177.11PPR_long2173536e-37127.8
LXL04_014731PF13812.13PPR_32573117.6e-68225.2
LXL04_014731PF12854.14PPR_12622948.8e-119387.6
LXL04_014731PF13041.13PPR_22663151.1e-152496.7
LXL04_014731PF01535.27PPR2692992.6e-104335.2
LXL04_014731PF23276.3TPR_242693504.9e-32111.3
LXL04_014731PF29070.1MSC6_N2703452.4e-32113.2
LXL04_014731PF12854.14PPR_12973298.8e-119387.6
LXL04_014731PF13041.13PPR_23043501.1e-152496.7
LXL04_014731PF17177.11PPR_long3174166e-37127.8
LXL04_014731PF12854.14PPR_13333638.8e-119387.6
LXL04_014731PF13041.13PPR_23363811.1e-152496.7
LXL04_014731PF01535.27PPR3393672.6e-104335.2
LXL04_014731PF13812.13PPR_33594177.6e-68225.2
LXL04_014731PF17177.11PPR_long3594516e-37127.8

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
Q9LFC5Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g0111051.694%Swiss-Protstrong database homology
Q0WVK7Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g05670, mitochondrial29.878%Swiss-Protweak database homology
Q9FIX3Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g3971029.787%Swiss-Protweak database homology
Q9FJE6Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At5g5990030.680%Swiss-Protmoderate database homology
Q9ZQF1Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g15630, mitochondrial31.433%Swiss-Protmoderate database homology

JBrowse

View in Genome Browser