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

TkAUNG044540
Reference: TK1151 Chr: ChrUn Coordinates: 12392373-12394019 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1647 bp · TkAUNG044540|TK1151|cDNA

ATGCCAATGCACCGTCTTATACCAAAGTGGTACCAGGTTCGGGTTCCTCGAGCATCTTGGGGAGTCTTTCACAGCCATTTGCTCCTACGATCACCAAAAATCATTTCGCCTACGTCCTTTTGGCAAATATCTACTCTTTCGACCACCAATCTCATTCAAGATTACATTCGCGATGGTAACGTTAACGATGCTCGCAAACTGTTTGATGAAAATCTCACGTCTTGTAATACCGTTGCTTGGAATTCCATGATCACTGGCCA...

CDS

Download CDS FASTA

1647 bp · TkAUNG044540|TK1151|CDS

ATGCCAATGCACCGTCTTATACCAAAGTGGTACCAGGTTCGGGTTCCTCGAGCATCTTGGGGAGTCTTTCACAGCCATTTGCTCCTACGATCACCAAAAATCATTTCGCCTACGTCCTTTTGGCAAATATCTACTCTTTCGACCACCAATCTCATTCAAGATTACATTCGCGATGGTAACGTTAACGATGCTCGCAAACTGTTTGATGAAAATCTCACGTCTTGTAATACCGTTGCTTGGAATTCCATGATCACTGGCCA...

Protein

Download Protein FASTA

548 aa · TkAUNG044540|TK1151|PROTEIN

MPMHRLIPKWYQVRVPRASWGVFHSHLLLRSPKIISPTSFWQISTLSTTNLIQDYIRDGNVNDARKLFDENLTSCNTVAWNSMITGHIRHNQMQSAHDLFDRMPVRDVVSWNTMLSGLNKTKNPHKLHQFFLQMNRAGERPNQFTFSTIISGFLNTFDVLVPQLHTLILHLGLHSNIFVGSALMRGYTHLHDHYSLCHVFDDILLKDISTWNALLVGYMDLGFTTEAQMTFNRMPEVNIISWTTLVDGYIKNKKINQARH...

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 IDTkAUNG044540
TK1151 IDTkAUNG044540
OH-1004 IDLXL04_001273
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)96.200
Protein coverage (%)TK1151 94.891 / OH-1004 99.426
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 versionTK1151 / GWHBCHF00000000
Open Full ID Mapping
SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene IDTkAUNG044540
LocationChrUn:12392373-12394019 (+)
DescriptionSimilar to PCMP-H24: Pentatricopeptide repeat-containing protein At4g02750
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g03880 Pentatricopeptide repeat-containing protein At2g03880, mitochondrial. No verified direct reference in this release
At3g13770 Putative pentatricopeptide repeat-containing protein At3g13770, mitochondrial. No verified direct reference in this release
At2g22410 Pentatricopeptide repeat-containing protein At2g22410, mitochondrial. No verified direct reference in this release
At3g23330 Putative pentatricopeptide repeat-containing protein At3g23330. No verified direct reference in this release
At5g48910 Pentatricopeptide repeat-containing protein At5g48910. 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_001273 · GCA_047496595.1_OSU_TarKok_2.0. These OH1004 annotations are retrieved through ID mapping; the Arabidopsis/rice table below uses protein alignments from the query reference.

GO annotations (OH1004 source)
GO:0009451 RNA modification Biological Process
GO:0010182 sugar mediated signaling pathway Biological Process
GO:0010214 seed coat development Biological Process
GO:0080156 mitochondrial mRNA modification Biological Process
GO:0140547 acquisition of seed longevity Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT2G13600
ath:AT4G02750
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.

Mitochondrion0.753
Rank 1 · TkAUNG044540 · TK1151
Plastid0.111
Rank 2 · TkAUNG044540 · TK1151
Nucleus0.045
Rank 3 · TkAUNG044540 · TK1151
Cytoplasm0.030
Rank 4 · TkAUNG044540 · TK1151
Cell membrane0.006
Rank 5 · TkAUNG044540 · TK1151

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.

PF17049AEP142-70 aa
PF24603TPR_3046-105 aa
PF13041PPR_247-70 aa
PF05843Suf47-123 aa
PF29070MSC6_N48-155 aa
PF01535PPR49-70 aa
PF13812PPR_349-70 aa
PF23220HAT_Syf1_M49-84 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkAUNG044540PF17049AEP142700.05913.2
TkAUNG044540PF24603TPR_30461058.3e-0523.7
TkAUNG044540PF13041PPR_247704.3e-76251.6
TkAUNG044540PF05843Suf471232.1e-0627.3
TkAUNG044540PF29070MSC6_N481551.1e-1248.5
TkAUNG044540PF01535PPR49707.1e-66214.7
TkAUNG044540PF13812PPR_349701.4e-29102.7
TkAUNG044540PF23220HAT_Syf1_M49847.5e-0523.4
TkAUNG044540PF23240HAT_PRP39_N491020.006917.2
TkAUNG044540PF23276TPR_24511028.3e-1142.6
TkAUNG044540PF24760TPR_IF140_C51700.002518.9
TkAUNG044540PF12854PPR_157702.6e-44149.3
TkAUNG044540PF22330Rib_mS39_PPR62921e-0526.1
TkAUNG044540PF01335DED701290.01116.7
TkAUNG044540PF13041PPR_2761044.3e-76251.6
TkAUNG044540PF12854PPR_1761032.6e-44149.3

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
Q9SI53Arabidopsis thalianasp|Q9SI53|PP147_ARATH Pentatricopeptide repeat-containing protein At2g03880, mitochondrial30.100%Swiss-ProtMedium
Q9LIC3Arabidopsis thalianasp|Q9LIC3|PP227_ARATH Putative pentatricopeptide repeat-containing protein At3g13770, mitochondrial28.800%Swiss-ProtLow
Q9SJZ3Arabidopsis thalianasp|Q9SJZ3|PP169_ARATH Pentatricopeptide repeat-containing protein At2g22410, mitochondrial31.200%Swiss-ProtMedium
Q9LW63Arabidopsis thalianasp|Q9LW63|PP251_ARATH Putative pentatricopeptide repeat-containing protein At3g2333027.600%Swiss-ProtLow
Q9FI80Arabidopsis thalianasp|Q9FI80|PP425_ARATH Pentatricopeptide repeat-containing protein At5g4891034.300%Swiss-ProtMedium

JBrowse

View in Genome Browser