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_018661
Reference: OH-1004 Chr: Chr04 Coordinates: 16409487-16411952 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2466 bp · LXL04_018661|LXL04_018661|OH1004|cDNA

ATGATCGTCTTTCCTTTGAGACTTGGAAGATCAGTGACAACCACCACCAATCTGAAAAGACAATGTTCGTTATATCCATGCTCTCACTACACCACAAACACCGTGGACGCTACAACAATAAAAACGGGCTTCCACCCGAACACATCACGCTCCAACTTTCTCCTCAAAGATCTTGTAGCCAATGGGGAAGTATCGCAagcacaccaactgttcgatCAAATGCCCCATAGAAACACATACTCATTCAACACTTTGATATC...

CDS

Download CDS FASTA

2466 bp · LXL04_018661|LXL04_018661|OH1004|CDS

ATGATCGTCTTTCCTTTGAGACTTGGAAGATCAGTGACAACCACCACCAATCTGAAAAGACAATGTTCGTTATATCCATGCTCTCACTACACCACAAACACCGTGGACGCTACAACAATAAAAACGGGCTTCCACCCGAACACATCACGCTCCAACTTTCTCCTCAAAGATCTTGTAGCCAATGGGGAAGTATCGCAAGCACACCAACTGTTCGATCAAATGCCCCATAGAAACACATACTCATTCAACACTTTGATATC...

Protein

Download Protein FASTA

821 aa · LXL04_018661|LXL04_018661|OH1004|PROTEIN

MIVFPLRLGRSVTTTTNLKRQCSLYPCSHYTTNTVDATTIKTGFHPNTSRSNFLLKDLVANGEVSQAHQLFDQMPHRNTYSFNTLISGYVKSGNLTRARGLFDEMNVRTEVSWTILIGGYKQQNQPVDAFKLYAEMCRWGTPPDDVTFVTLLPCCNETLMTEIITQVHSHIIKLGFNYAIEVCNSLLDAYCKTGTLELANRLFIEMPTKDSVTFNTMITGYSNEGLNNQAINLFLEMKHLGLIPSEYTFAAVIRATMGIN...

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_018661
TK1151 IDTkA08G076890
OH-1004 IDLXL04_018661
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)100.000
Protein coverage (%)TK1151 100.000 / OH-1004 100.000
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_018661
LocationChr04:16409487-16411952 (+)
DescriptionSimilar to PCMP-H36: Putative pentatricopeptide repeat-containing protein At2g01510
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g02010 Putative pentatricopeptide repeat-containing protein At2g01510. No verified direct reference in this release
At3g03580 Pentatricopeptide repeat-containing protein At3g03580. No verified direct reference in this release
At2g27610 Pentatricopeptide repeat-containing protein At2g27610. No verified direct reference in this release
At4g02750 Pentatricopeptide repeat-containing protein At4g02750. No verified direct reference in this release
At4g33170 Pentatricopeptide repeat-containing protein At4g33170. 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_018661 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0009451 RNA modification Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0003729 mRNA binding Molecular Function
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT3G02010
ath:AT3G03580
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.

Mitochondrion0.650
Rank 1 · LXL04_018661 · OH-1004
Plastid0.212
Rank 2 · LXL04_018661 · OH-1004
Nucleus0.046
Rank 3 · LXL04_018661 · OH-1004
Cytoplasm0.036
Rank 4 · LXL04_018661 · OH-1004
Cell membrane0.006
Rank 5 · LXL04_018661 · 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.

PF12854.14PPR_177-105 aa
PF13041.13PPR_278-106 aa
PF01535.27PPR80-105 aa
PF13041.13PPR_2109-155 aa
PF01535.27PPR111-140 aa
PF13041.13PPR_2182-208 aa
PF01535.27PPR182-209 aa
PF13041.13PPR_2209-255 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_018661PF12854.14PPR_1771058.7e-51170.1
LXL04_018661PF13041.13PPR_2781061.1e-90298.3
LXL04_018661PF01535.27PPR801051.2e-79257.8
LXL04_018661PF13041.13PPR_21091551.1e-90298.3
LXL04_018661PF01535.27PPR1111401.2e-79257.8
LXL04_018661PF13041.13PPR_21822081.1e-90298.3
LXL04_018661PF01535.27PPR1822091.2e-79257.8
LXL04_018661PF13041.13PPR_22092551.1e-90298.3
LXL04_018661PF12854.14PPR_12102388.7e-51170.1
LXL04_018661PF01535.27PPR2122421.2e-79257.8
LXL04_018661PF13041.13PPR_24124571.1e-90298.3
LXL04_018661PF01535.27PPR4154411.2e-79257.8
LXL04_018661PF12854.14PPR_14785098.7e-51170.1
LXL04_018661PF13041.13PPR_24825141.1e-90298.3
LXL04_018661PF01535.27PPR4875141.2e-79257.8
LXL04_018661PF13041.13PPR_25125601.1e-90298.3

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
Q9S7F4Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At2g0151053.922%Swiss-Protstrong database homology
Q9SS60Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g0358036.954%Swiss-Protmoderate database homology
Q9ZUW3Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g2761036.302%Swiss-Protmoderate database homology
Q9SY02Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g0275034.156%Swiss-Protmoderate database homology
Q9SMZ2Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g3317032.480%Swiss-Protmoderate database homology

JBrowse

View in Genome Browser