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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_018977
Reference: OH-1004 Chr: Chr04 Coordinates: 20870116-20872524 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1824 bp · LXL04_018977|LXL04_018977|OH1004|cDNA

ATGGGAGAATACAGTAAAGAAAGGTTAAATTCCGTCGTCATCAAGAAGCACCGAAATGGTCCAATCACAAGCAAGTCAAAGATCCAAGCATCCACCACCATGGAAACGCATCTTCACGAAAAGGTCCAATCCGGTACAGATTCAGCTGTCGTGAGTTCACGAACCCAATCACGCTGCGACATTTGTATGGAAGAAAACAACAACAGTTGCCAAACAGTTCGATCGAGAACCAAACTAATGAAGATCTTAATCGAAAGAAA...

CDS

Download CDS FASTA

1824 bp · LXL04_018977|LXL04_018977|OH1004|CDS

ATGGGAGAATACAGTAAAGAAAGGTTAAATTCCGTCGTCATCAAGAAGCACCGAAATGGTCCAATCACAAGCAAGTCAAAGATCCAAGCATCCACCACCATGGAAACGCATCTTCACGAAAAGGTCCAATCCGGTACAGATTCAGCTGTCGTGAGTTCACGAACCCAATCACGCTGCGACATTTGTATGGAAGAAAACAACAACAGTTGCCAAACAGTTCGATCGAGAACCAAACTAATGAAGATCTTAATCGAAAGAAA...

Protein

Download Protein FASTA

607 aa · LXL04_018977|LXL04_018977|OH1004|PROTEIN

MGEYSKERLNSVVIKKHRNGPITSKSKIQASTTMETHLHEKVQSGTDSAVVSSRTQSRCDICMEENNNSCQTVRSRTKLMKILIERKKPQEVQSIMKDLIDDGHIPTLVTYTTLLAALTLQKRFNSIPSLLSKVESNGLKPDSIFFNAIINAFSESGNIKEAMKMYKKMKDSGCKPTTSTLNTLIKGLGIIGKPEECLKLLEIMSIEEKVKPNDRTFNIITQAWCSKRNITEAWNVVDKMVVYGIKPDVVTYNTIAKAYA...

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_018977
TK1151 IDTkA05G006960
OH-1004 IDLXL04_018977
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)99.800
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_018977
LocationChr04:20870116-20872524 (+)
DescriptionSimilar to ATC401: Pentatricopeptide repeat-containing protein At5g21222
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g21222 Pentatricopeptide repeat-containing protein At5g21222. No verified direct reference in this release
At5g25630 Pentatricopeptide repeat-containing protein At5g25630. No verified direct reference in this release
At1g62930 Pentatricopeptide repeat-containing protein At1g62930, chloroplastic. No verified direct reference in this release
At1g63130 Pentatricopeptide repeat-containing protein At1g63130, mitochondrial. No verified direct reference in this release

Rice

Reference gene IDPossible functionPapers / DOI
UniProt: Q76C99 Reduces the expression of the cytoplasmic male sterility (CMS)-associated mitochondrial gene ORF79, encoding a cytotoxic peptide. No verified direct reference in this release
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_018977 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006397 mRNA processing Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0009536 plastid Cellular Component
GO:0003729 mRNA binding Molecular Function
GO:0004672 protein kinase activity Molecular Function
GO:0005524 ATP binding Molecular Function
KEGG gene cross-reference
ath:AT1G62930
ath:AT5G21222
ath:AT5G25630
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.

Plastid0.637
Rank 1 · LXL04_018977 · OH-1004
Mitochondrion0.245
Rank 2 · LXL04_018977 · OH-1004
Nucleus0.061
Rank 3 · LXL04_018977 · OH-1004
Cytoplasm0.028
Rank 4 · LXL04_018977 · OH-1004
Cell membrane0.011
Rank 5 · LXL04_018977 · 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.

PF29070.1MSC6_N77-168 aa
PF13812.13PPR_394-153 aa
PF13812.13PPR_3129-187 aa
PF23276.3TPR_24134-186 aa
PF12854.14PPR_1137-170 aa
PF13041.13PPR_2141-188 aa
PF01535.27PPR146-174 aa
PF17177.11PPR_long146-247 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_018977PF29070.1MSC6_N771681.4e-28100.8
LXL04_018977PF13812.13PPR_3941536.2e-61203.1
LXL04_018977PF13812.13PPR_31291876.2e-61203.1
LXL04_018977PF23276.3TPR_241341866.9e-29101.1
LXL04_018977PF12854.14PPR_11371702.3e-73242.3
LXL04_018977PF13041.13PPR_21411881.5e-87288.2
LXL04_018977PF01535.27PPR1461743.6e-61200.0
LXL04_018977PF17177.11PPR_long1462478.3e-34117.5
LXL04_018977PF29070.1MSC6_N1462371.4e-28100.8
LXL04_018977PF12854.14PPR_11732042.3e-73242.3
LXL04_018977PF13041.13PPR_21762251.5e-87288.2
LXL04_018977PF23276.3TPR_241842706.9e-29101.1
LXL04_018977PF12854.14PPR_12102412.3e-73242.3
LXL04_018977PF13041.13PPR_22122601.5e-87288.2
LXL04_018977PF17177.11PPR_long2293038.3e-34117.5
LXL04_018977PF13812.13PPR_32362856.2e-61203.1

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
Q8S9D1Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g2122262.931%Swiss-Protstrong database homology
Q8GZ63Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g2563055.814%Swiss-Protstrong database homology
Q9LQ14Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g62930, chloroplastic28.910%Swiss-Protweak database homology
Q9CAN0Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g63130, mitochondrial27.115%Swiss-Protweak database homology
Q76C99Oryza sativa subsp. indicaProtein Rf1, mitochondrial28.037%Swiss-Protweak database homology

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