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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_024107
Reference: OH-1004 Chr: Chr05 Coordinates: 81212959-81215049 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2091 bp · LXL04_024107|LXL04_024107|OH1004|cDNA

ATGGCAATGTCCGCCCTGATACGGCCACCACATTTCATTGCGCTTGAACATGACACTCTCAAACTCCTAAAATACTTAGCGGGAACTAGAAACCTTGAGCTCGGTAAAGTAATTCACGCCCGTTTGATTGTCTCTGATCAATCCTCTGAATATAATACACTCGAGACCAACGCGCTGATCGACCTTTACTCCAAATGTGCGGCACTGGGATCTGCACGCCAAGTGTTCGATAAAATGACCAAACGAGATGTAGTTTCCTG...

CDS

Download CDS FASTA

2091 bp · LXL04_024107|LXL04_024107|OH1004|CDS

ATGGCAATGTCCGCCCTGATACGGCCACCACATTTCATTGCGCTTGAACATGACACTCTCAAACTCCTAAAATACTTAGCGGGAACTAGAAACCTTGAGCTCGGTAAAGTAATTCACGCCCGTTTGATTGTCTCTGATCAATCCTCTGAATATAATACACTCGAGACCAACGCGCTGATCGACCTTTACTCCAAATGTGCGGCACTGGGATCTGCACGCCAAGTGTTCGATAAAATGACCAAACGAGATGTAGTTTCCTG...

Protein

Download Protein FASTA

696 aa · LXL04_024107|LXL04_024107|OH1004|PROTEIN

MAMSALIRPPHFIALEHDTLKLLKYLAGTRNLELGKVIHARLIVSDQSSEYNTLETNALIDLYSKCAALGSARQVFDKMTKRDVVSWSSLMAGLFQNGFSFEVLKSFNSMVSENDEFCQPNEYIFTLVLSSCSTLRYIQLGRQCHGYVLKSGLIFYEYVKNALVRLYSMMPDVVGAMEVLVSVPGYNTCTYNLILNGLIEHNYLHEASDIVKKMLTEQIMWDKSTYITIFTLCARLQDPYLGQQVHNKLLKSDIEFDVYV...

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_024107
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_024107
LocationChr05:81212959-81215049 (+)
DescriptionSimilar to EMB2744: Pentatricopeptide repeat-containing protein At5g39680
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g39680 Pentatricopeptide repeat-containing protein At5g39680. No verified direct reference in this release
At4g30700 Pentatricopeptide repeat-containing protein At4g30700. No verified direct reference in this release
At2g27610 Pentatricopeptide repeat-containing protein At2g27610. No verified direct reference in this release
At4g13650 Pentatricopeptide repeat-containing protein At4g13650. No verified direct reference in this release
At3g23330 Putative pentatricopeptide repeat-containing protein At3g23330. 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_024107 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0000963 mitochondrial RNA processing Biological Process
GO:0009451 RNA modification Biological Process
GO:0016554 cytidine to uridine editing Biological Process
GO:0080156 mitochondrial mRNA modification 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:AT2G27610
ath:AT4G30700
ath:AT5G39680
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.

Mitochondrion0.683
Rank 1 · LXL04_024107 · OH-1004
Plastid0.187
Rank 2 · LXL04_024107 · OH-1004
Nucleus0.044
Rank 3 · LXL04_024107 · OH-1004
Cytoplasm0.033
Rank 4 · LXL04_024107 · OH-1004
Cell membrane0.007
Rank 5 · LXL04_024107 · 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_2187-234 aa
PF13041.13PPR_2287-335 aa
PF13812.13PPR_3288-335 aa
PF01535.27PPR290-319 aa
PF13041.13PPR_2388-436 aa
PF01535.27PPR391-420 aa
PF29070.1MSC6_N392-485 aa
PF17177.11PPR_long407-508 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_024107PF13041.13PPR_21872348.7e-54180.1
LXL04_024107PF13041.13PPR_22873358.7e-54180.1
LXL04_024107PF13812.13PPR_32883355.5e-2484.7
LXL04_024107PF01535.27PPR2903198.8e-48158.0
LXL04_024107PF13041.13PPR_23884368.7e-54180.1
LXL04_024107PF01535.27PPR3914208.8e-48158.0
LXL04_024107PF29070.1MSC6_N3924852.8e-1247.2
LXL04_024107PF17177.11PPR_long4075082.5e-1040.8
LXL04_024107PF13812.13PPR_34124715.5e-2484.7
LXL04_024107PF20431.5E_motif5085681.3e-1661.3
LXL04_024107PF14432.13DYW_deaminase6046961.1e-39134.9

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
Q9FK93Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g3968047.267%Swiss-Protmoderate database homology
Q9SUH6Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g3070036.364%Swiss-Protmoderate database homology
Q9ZUW3Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g2761036.646%Swiss-Protmoderate database homology
Q9SVP7Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g1365035.014%Swiss-Protmoderate database homology
Q9LW63Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At3g2333033.193%Swiss-Protmoderate database homology

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