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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_035760
Reference: OH-1004 Chr: Chr08 Coordinates: 28409191-28411712 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2103 bp · LXL04_035760|LXL04_035760|OH1004|cDNA

ATGAACGCTCTCCTCCTCCCTCCACCCTTATCCACCACCAACCGCTTCCTCCGCCACCAGAACCTCTACCAACCACTGCCACAACCGCTCTCCTCCTCCACCTTTTACATCAGCAACACACCTCTCCGTGTATCCCCCTCATTTTCCTCTTCCCCCTTCTTATCCGAAGATGACACAATTACACAGGACGCCGTCGTTTCCCTCTACCCCTACCGCAGGTACGACTTCTCCCCCCTCCTCGAGTTCCTTTCCACCTACAA...

CDS

Download CDS FASTA

2103 bp · LXL04_035760|LXL04_035760|OH1004|CDS

ATGAACGCTCTCCTCCTCCCTCCACCCTTATCCACCACCAACCGCTTCCTCCGCCACCAGAACCTCTACCAACCACTGCCACAACCGCTCTCCTCCTCCACCTTTTACATCAGCAACACACCTCTCCGTGTATCCCCCTCATTTTCCTCTTCCCCCTTCTTATCCGAAGATGACACAATTACACAGGACGCCGTCGTTTCCCTCTACCCCTACCGCAGGTACGACTTCTCCCCCCTCCTCGAGTTCCTTTCCACCTACAA...

Protein

Download Protein FASTA

700 aa · LXL04_035760|LXL04_035760|OH1004|PROTEIN

MNALLLPPPLSTTNRFLRHQNLYQPLPQPLSSSTFYISNTPLRVSPSFSSSPFLSEDDTITQDAVVSLYPYRRYDFSPLLEFLSTYNSDSDTNSPTSLDQTELRLAELYRVVPAPLWHSLLKSITSSSTSSFETAYALVTWLQKHNLCFSYELLYSILIHALGRSEKLYEAFLLSQKQALTPITYNALIGACARNNDLEKAINLMNRMRREGHQSDFVNYSLIIQSLVRSNKIDSALLEKLYDEMISDAIELDGQLLNDI...

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_035760
TK1151 IDTkA04G110200
OH-1004 IDLXL04_035760
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)99.700
Protein coverage (%)TK1151 66.383 / OH-1004 44.571
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_035760
LocationChr08:28409191-28411712 (+)
DescriptionSimilar to CRP1: Pentatricopeptide repeat-containing protein At5g42310, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g42310 Required for chloroplast protein synthesis and accumulation of subunits of the thylakoid protein complexes.
CRP1 Protein: (dis)similarities between Arabidopsis thaliana and Zea mays.2017 · DOI: 10.3389/fpls.2017.00163

Rice

Reference gene IDPossible functionPapers / DOI
Os07g0548300 Required for the processing and translation of chloroplast mRNAs. No verified direct reference in this release
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_035760 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006397 mRNA processing Biological Process
GO:0006417 regulation of translation Biological Process
GO:0009658 chloroplast organization Biological Process
GO:0010239 chloroplast mRNA processing Biological Process
GO:0045727 positive regulation of translation Biological Process
GO:0048255 mRNA stabilization Biological Process
GO:0005737 cytoplasm Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0009534 chloroplast thylakoid Cellular Component
GO:0009570 chloroplast stroma Cellular Component
GO:0042644 chloroplast nucleoid Cellular Component
GO:0042651 thylakoid membrane Cellular Component
KEGG gene cross-reference
ath:AT5G42310
dosa:Os07g0548300
zma:100302579
zma:732792
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.

Plastid0.721
Rank 1 · LXL04_035760 · OH-1004
Mitochondrion0.196
Rank 2 · LXL04_035760 · OH-1004
Nucleus0.056
Rank 3 · LXL04_035760 · OH-1004
Cytoplasm0.025
Rank 4 · LXL04_035760 · OH-1004
Cell membrane0.011
Rank 5 · LXL04_035760 · 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_2183-228 aa
PF01535.27PPR183-212 aa
PF12854.14PPR_1183-209 aa
PF17177.11PPR_long210-374 aa
PF23276.3TPR_24260-345 aa
PF29070.1MSC6_N288-383 aa
PF13812.13PPR_3311-371 aa
PF13041.13PPR_2324-370 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_035760PF13041.13PPR_21832285e-103337.8
LXL04_035760PF01535.27PPR1832122.3e-89288.3
LXL04_035760PF12854.14PPR_11832091.6e-78258.8
LXL04_035760PF17177.11PPR_long2103744.6e-37128.2
LXL04_035760PF23276.3TPR_242603452.3e-44151.3
LXL04_035760PF29070.1MSC6_N2883834.7e-43148.4
LXL04_035760PF13812.13PPR_33113714.9e-77254.7
LXL04_035760PF13041.13PPR_23243705e-103337.8
LXL04_035760PF01535.27PPR3263552.3e-89288.3
LXL04_035760PF23276.3TPR_243454512.3e-44151.3
LXL04_035760PF17177.11PPR_long3464304.6e-37128.2
LXL04_035760PF12854.14PPR_13533861.6e-78258.8
LXL04_035760PF01535.27PPR3613902.3e-89288.3
LXL04_035760PF13041.13PPR_23653985e-103337.8
LXL04_035760PF13812.13PPR_33814414.9e-77254.7
LXL04_035760PF29070.1MSC6_N3864884.7e-43148.4

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
Q8L844Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g42310, chloroplastic71.268%Swiss-Protstrong database homology
Q84ZD2Oryza sativa subsp. japonicaPentatricopeptide repeat-containing protein CRP1 homolog, chloroplastic53.710%Swiss-Protstrong database homology
Q76C99Oryza sativa subsp. indicaProtein Rf1, mitochondrial26.820%Swiss-Protweak database homology

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