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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_005553
Reference: OH-1004 Chr: Chr01 Coordinates: 168343520-168345358 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1839 bp · LXL04_005553|LXL04_005553|OH1004|cDNA

ATGTCACGAAGAAACATAAATCTCGTTTCTCAAATCCGTCGTCGTCATATCTTCTCCTACGCCTCAAGATTCCATTATCATCATAAGCTCTCGCCAATTGTAAGTTCATCACTACCTCTGTCTCATAGCTATTTCAGTGCTCCCATCCCGAATTCGTCGAAAAAATTGTTTAAAGTTAGTGTCTTTCCACTTCCGAATTCCTTTCCACAAACGAGTAAGGGCAATTTGACATCGATTCACTATTATAGTGAAGGCGGTAA...

CDS

Download CDS FASTA

1839 bp · LXL04_005553|LXL04_005553|OH1004|CDS

ATGTCACGAAGAAACATAAATCTCGTTTCTCAAATCCGTCGTCGTCATATCTTCTCCTACGCCTCAAGATTCCATTATCATCATAAGCTCTCGCCAATTGTAAGTTCATCACTACCTCTGTCTCATAGCTATTTCAGTGCTCCCATCCCGAATTCGTCGAAAAAATTGTTTAAAGTTAGTGTCTTTCCACTTCCGAATTCCTTTCCACAAACGAGTAAGGGCAATTTGACATCGATTCACTATTATAGTGAAGGCGGTAA...

Protein

Download Protein FASTA

612 aa · LXL04_005553|LXL04_005553|OH1004|PROTEIN

MSRRNINLVSQIRRRHIFSYASRFHYHHKLSPIVSSSLPLSHSYFSAPIPNSSKKLFKVSVFPLPNSFPQTSKGNLTSIHYYSEGGNDAFDRTPGGQISTLSNDGELYEKVGDSGSDAIALDKKPNPCVPFSINGQNLYNIIIDCKPNNPQNSNMEKSLDQTGVQLTTPLVMEVLGSLRYQETLAFRFFTWAGNQENYTHEPQAYNEMIDILSNTKYKAKQYRIVCDLLDYMKRNNKTRVPIESLLKILKQYADKHLAHL...

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_005553
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_005553
LocationChr01:168343520-168345358 (-)
DescriptionSimilar to At1g73400: Pentatricopeptide repeat-containing protein At1g73400, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g73400 Pentatricopeptide repeat-containing protein At1g73400, mitochondrial. No verified direct reference in this release
At3g62470 Pentatricopeptide repeat-containing protein At3g62470, 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
At1g77360 Pentatricopeptide repeat-containing protein At1g77360, 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_005553 · 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:AT1G73400
ath:AT1G77360
ath:AT3G62470
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.

Mitochondrion0.699
Rank 1 · LXL04_005553 · OH-1004
Plastid0.176
Rank 2 · LXL04_005553 · OH-1004
Nucleus0.087
Rank 3 · LXL04_005553 · OH-1004
Cytoplasm0.032
Rank 4 · LXL04_005553 · OH-1004
Cell membrane0.011
Rank 5 · LXL04_005553 · 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_2277-324 aa
PF12854.14PPR_1308-338 aa
PF13812.13PPR_3308-357 aa
PF13041.13PPR_2310-359 aa
PF12854.14PPR_1342-374 aa
PF13041.13PPR_2346-397 aa
PF01535.27PPR348-377 aa
PF17177.11PPR_long381-449 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_005553PF13041.13PPR_22773241.5e-63211.4
LXL04_005553PF12854.14PPR_13083381e-48163.5
LXL04_005553PF13812.13PPR_33083574.2e-2897.9
LXL04_005553PF13041.13PPR_23103591.5e-63211.4
LXL04_005553PF12854.14PPR_13423741e-48163.5
LXL04_005553PF13041.13PPR_23463971.5e-63211.4
LXL04_005553PF01535.27PPR3483771.9e-40135.0
LXL04_005553PF17177.11PPR_long3814496.8e-1762.3
LXL04_005553PF12854.14PPR_13824111e-48163.5
LXL04_005553PF13041.13PPR_23834311.5e-63211.4
LXL04_005553PF01535.27PPR3874161.9e-40135.0
LXL04_005553PF23276.3TPR_243884817e-1968.8
LXL04_005553PF13812.13PPR_34064674.2e-2897.9
LXL04_005553PF12854.14PPR_14154471e-48163.5
LXL04_005553PF13041.13PPR_24224671.5e-63211.4
LXL04_005553PF17177.11PPR_long4365186.8e-1762.3

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
Q9FX35Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g73400, mitochondrial60.131%Swiss-Protstrong database homology
Q9LZP3Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g62470, mitochondrial28.196%Swiss-Protweak database homology
Q3EAF8Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g62540, mitochondrial27.846%Swiss-Protweak database homology
Q9LEQ7Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g14820, mitochondrial29.278%Swiss-Protweak database homology
Q9FVX2Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g77360, mitochondrial29.877%Swiss-Protweak database homology

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