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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_001647
Reference: OH-1004 Chr: Chr01 Coordinates: 30750744-30753023 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2280 bp · LXL04_001647|LXL04_001647|OH1004|cDNA

ATGAACCTCCTTAAACCCTACCGGAAAACTCTTCACTTCTCCACTCTTGCCTCCCTGACACCACCACAATCGGCACCTGATGTTCATCTCGTCGGAAAAACCATATCCATCCTCAAACGCCACCATTTAATCAACCTAGATCATCTATCGCCCCAATTTACTCCTCAATCAGCTTCTTATTTACTACTCCAGTCTCAATTTGACAAAACCCTAGTCCTACCATTCATCAATTGGGCTCGCCGACGCCCCTTCTTTGATCT...

CDS

Download CDS FASTA

2280 bp · LXL04_001647|LXL04_001647|OH1004|CDS

ATGAACCTCCTTAAACCCTACCGGAAAACTCTTCACTTCTCCACTCTTGCCTCCCTGACACCACCACAATCGGCACCTGATGTTCATCTCGTCGGAAAAACCATATCCATCCTCAAACGCCACCATTTAATCAACCTAGATCATCTATCGCCCCAATTTACTCCTCAATCAGCTTCTTATTTACTACTCCAGTCTCAATTTGACAAAACCCTAGTCCTACCATTCATCAATTGGGCTCGCCGACGCCCCTTCTTTGATCT...

Protein

Download Protein FASTA

759 aa · LXL04_001647|LXL04_001647|OH1004|PROTEIN

MNLLKPYRKTLHFSTLASLTPPQSAPDVHLVGKTISILKRHHLINLDHLSPQFTPQSASYLLLQSQFDKTLVLPFINWARRRPFFDLRCSCLSLHILTRFKLYKTAQIIAEDVAINARGDENGELVFTCLKDTFSDCNSSSAVIDLLVKSYSNLKLVKRGLNTIHLAISHGYMPGVLSYNSVLDAIIRSNDPIKLAEDMYLHMIKVGVSPNVFTYNILIRGFCGVKNMEKGLEFFAEMQKNGCLPNVVTYNTLIDANCKL...

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.

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ID Mapping

Input IDLXL04_001647
TK1151 IDTkA01G520620
OH-1004 IDLXL04_001647
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)99.600
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_001647
LocationChr01:30750744-30753023 (-)
DescriptionSimilar to EMB2745: Pentatricopeptide repeat-containing protein At5g39710
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g39710 Pentatricopeptide repeat-containing protein At5g39710. No verified direct reference in this release
At5g55840 Pentatricopeptide repeat-containing protein At5g55840. No verified direct reference in this release
At1g05670 Pentatricopeptide repeat-containing protein At1g05670, mitochondrial. No verified direct reference in this release
At5g59900 Putative pentatricopeptide repeat-containing protein At5g59900. No verified direct reference in this release
At1g63130 Pentatricopeptide repeat-containing protein At1g63130, 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_001647 · 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: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.

Mitochondrion0.842
Rank 1 · LXL04_001647 · OH-1004
Plastid0.083
Rank 2 · LXL04_001647 · OH-1004
Nucleus0.052
Rank 3 · LXL04_001647 · OH-1004
Cytoplasm0.040
Rank 4 · LXL04_001647 · OH-1004
Cell membrane0.012
Rank 5 · LXL04_001647 · 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_2174-223 aa
PF13812.13PPR_3174-220 aa
PF13812.13PPR_3205-256 aa
PF12854.14PPR_1207-239 aa
PF01535.27PPR213-243 aa
PF13041.13PPR_2215-259 aa
PF17177.11PPR_long228-332 aa
PF13812.13PPR_3235-290 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_001647PF13041.13PPR_21742231.9e-185601.7
LXL04_001647PF13812.13PPR_31742201.4e-89294.9
LXL04_001647PF13812.13PPR_32052561.4e-89294.9
LXL04_001647PF12854.14PPR_12072392e-145472.9
LXL04_001647PF01535.27PPR2132431.4e-115370.5
LXL04_001647PF13041.13PPR_22152591.9e-185601.7
LXL04_001647PF17177.11PPR_long2283326.8e-47160.3
LXL04_001647PF13812.13PPR_32352901.4e-89294.9
LXL04_001647PF12854.14PPR_12412732e-145472.9
LXL04_001647PF13041.13PPR_22452941.9e-185601.7
LXL04_001647PF01535.27PPR2482751.4e-115370.5
LXL04_001647PF29070.1MSC6_N2493361.7e-35123.5
LXL04_001647PF13812.13PPR_32693271.4e-89294.9
LXL04_001647PF12854.14PPR_12773092e-145472.9
LXL04_001647PF13041.13PPR_22803291.9e-185601.7
LXL04_001647PF01535.27PPR2833121.4e-115370.5

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
Q9FIX3Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g3971060.952%Swiss-Protstrong database homology
Q9LVQ5Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g5584028.696%Swiss-Protweak database homology
Q0WVK7Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g05670, mitochondrial27.428%Swiss-Protweak database homology
Q9FJE6Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At5g5990028.021%Swiss-Protweak database homology
Q9CAN0Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g63130, mitochondrial32.630%Swiss-Protmoderate database homology

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