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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_031974
Reference: OH-1004 Chr: Chr07 Coordinates: 14153733-14155812 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1668 bp · LXL04_031974|LXL04_031974|OH1004|cDNA

ATGAAGATCGAGATTATTAAACGGATTCGTTGGCAGACCCAGCGTACTTGCATCTGGACATGGCGCTCGAACCACGCATCATCGATCATCGACTTTCCTCATAACGAACCTTCAGGTTACAAACATCTCTCCGTCATTCCCAATCATCAATTGCTGGTCCGTTCTCTTGAGGAatgcaaattttcaaataattCAACATCTCTTACTGGAACACACACAAGAATCATTAAACTCGGGTACCACAAATCTCCATCTCTCAC...

CDS

Download CDS FASTA

1668 bp · LXL04_031974|LXL04_031974|OH1004|CDS

ATGAAGATCGAGATTATTAAACGGATTCGTTGGCAGACCCAGCGTACTTGCATCTGGACATGGCGCTCGAACCACGCATCATCGATCATCGACTTTCCTCATAACGAACCTTCAGGTTACAAACATCTCTCCGTCATTCCCAATCATCAATTGCTGGTCCGTTCTCTTGAGGAATGCAAATTTTCAAATAATTCAACATCTCTTACTGGAACACACACAAGAATCATTAAACTCGGGTACCACAAATCTCCATCTCTCAC...

Protein

Download Protein FASTA

555 aa · LXL04_031974|LXL04_031974|OH1004|PROTEIN

MKIEIIKRIRWQTQRTCIWTWRSNHASSIIDFPHNEPSGYKHLSVIPNHQLLVRSLEECKFSNNSTSLTGTHTRIIKLGYHKSPSLTSLLVTAYMSFNLPTYARQLLDEIPYHNFNLLSSNSIIASSMKIGDIDSAKNIFRKMPKRDLVSWNSMIGGFVKNTKFQEAFRVFKKMLSTSNIEPDKFTFSSIITACARVGALHQANWIHSLLIEKKIQLNFILTSALIDMYSKCGQIETSKSIFESVRHEHDHVCVYNAMIN...

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_031974
TK1151 IDTkA08G139510
OH-1004 IDLXL04_031974
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)97.300
Protein coverage (%)TK1151 100.000 / OH-1004 86.486
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_031974
LocationChr07:14153733-14155812 (+)
DescriptionSimilar to PCMP-H59: Pentatricopeptide repeat-containing protein At5g50990
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g50990 Pentatricopeptide repeat-containing protein At5g50990. No verified direct reference in this release
At4g37380 Plays a major role in single RNA editing events in chloroplasts. No verified direct reference in this release
At3g62890 Pentatricopeptide repeat-containing protein At3g62890. No verified direct reference in this release
At4g21065 Pentatricopeptide repeat-containing protein At4g21065. No verified direct reference in this release
At4g14820 Pentatricopeptide repeat-containing protein At4g14820. 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_031974 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006397 mRNA processing Biological Process
GO:0009451 RNA modification Biological Process
GO:1900865 chloroplast RNA 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:AT3G62890
ath:AT4G21065
ath:AT4G37380
ath:AT5G50990
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.

Mitochondrion0.612
Rank 1 · LXL04_031974 · OH-1004
Plastid0.202
Rank 2 · LXL04_031974 · OH-1004
Nucleus0.059
Rank 3 · LXL04_031974 · OH-1004
Cytoplasm0.037
Rank 4 · LXL04_031974 · OH-1004
Cell membrane0.005
Rank 5 · LXL04_031974 · 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.

PF17177.11PPR_long117-252 aa
PF12854.14PPR_1146-174 aa
PF13041.13PPR_2147-196 aa
PF01535.27PPR149-175 aa
PF29070.1MSC6_N153-243 aa
PF13812.13PPR_3178-230 aa
PF13041.13PPR_2252-298 aa
PF01535.27PPR254-280 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_031974PF17177.11PPR_long1172525.1e-1039.8
LXL04_031974PF12854.14PPR_11461741.9e-2589.0
LXL04_031974PF13041.13PPR_21471964.6e-38129.8
LXL04_031974PF01535.27PPR1491752.5e-39131.5
LXL04_031974PF29070.1MSC6_N1532435.9e-0729.6
LXL04_031974PF13812.13PPR_31782303.4e-1659.8
LXL04_031974PF13041.13PPR_22522984.6e-38129.8
LXL04_031974PF01535.27PPR2542802.5e-39131.5
LXL04_031974PF20431.5E_motif3684278.7e-1349.0
LXL04_031974PF14432.13DYW_deaminase4635558.6e-34116.0

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
Q9FI49Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g5099053.725%Swiss-Protstrong database homology
Q9SZT8Arabidopsis thalianaPentatricopeptide repeat-containing protein ELI1, chloroplastic40.936%Swiss-Protmoderate database homology
Q683I9Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g6289040.974%Swiss-Protmoderate database homology
A8MQA3Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g2106545.330%Swiss-Protmoderate database homology
O23337Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g1482040.267%Swiss-Protmoderate database homology

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