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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_018675
Reference: OH-1004 Chr: Chr04 Coordinates: 16532350-16534680 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1440 bp · LXL04_018675|LXL04_018675|OH1004|cDNA

ATGGTTTCCCTCCCGGCGCCGGCAGCGAACCCATTCCCTCCGGATTCTAATCGGTTGCCCGAGCATAAAAAACCCGCCGGAGCCACCAATTTCAATCCGGTAAGAGAAGAATCGTTGCCAATTAACGATGAAACTATAAGAAGAGAAAGGAAAGAGCAAGTGAATAAGAAAATCGCGTCGCAGAAGGCAATATCGGTAATATTAAGAAGAGAAGCGACGAAGGCCGTGATTGAGAAGAAAAAAGGTTCCACGAGGTTGTT...

CDS

Download CDS FASTA

1440 bp · LXL04_018675|LXL04_018675|OH1004|CDS

ATGGTTTCCCTCCCGGCGCCGGCAGCGAACCCATTCCCTCCGGATTCTAATCGGTTGCCCGAGCATAAAAAACCCGCCGGAGCCACCAATTTCAATCCGGTAAGAGAAGAATCGTTGCCAATTAACGATGAAACTATAAGAAGAGAAAGGAAAGAGCAAGTGAATAAGAAAATCGCGTCGCAGAAGGCAATATCGGTAATATTAAGAAGAGAAGCGACGAAGGCCGTGATTGAGAAGAAAAAAGGTTCCACGAGGTTGTT...

Protein

Download Protein FASTA

479 aa · LXL04_018675|LXL04_018675|OH1004|PROTEIN

MVSLPAPAANPFPPDSNRLPEHKKPAGATNFNPVREESLPINDETIRRERKEQVNKKIASQKAISVILRREATKAVIEKKKGSTRLFPGTVLEALHERIAALRWESALKVFELLREQLWYRPNSAIYVKLIVMLGKCKQPEKAHSLFLAMIDEGCDANQESYTALLSAYSRSGLFRKAFSILEEMRNTPNCHPDVYTYSILIKSCLHFHEFDKVQSLLSEMVSQGVNPNTVTYNTLIDAYGKAKRFVDMESTLVEMLRQR...

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_018675
TK1151 IDTkA08G077720
OH-1004 IDLXL04_018675
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)100.000
Protein coverage (%)TK1151 62.474 / OH-1004 62.213
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_018675
LocationChr04:16532350-16534680 (+)
DescriptionSimilar to At5g48730: Pentatricopeptide repeat-containing protein At5g48730, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g48730 Pentatricopeptide repeat-containing protein At5g48730, chloroplastic. No verified direct reference in this release
At3g53170 Pentatricopeptide repeat-containing protein At3g53170. No verified direct reference in this release
At3g06430 Pentatricopeptide repeat-containing protein At3g06430, chloroplastic. No verified direct reference in this release
At4g39620 Essential for embryo development. No verified direct reference in this release
At1g74850 Involved in plastid gene expression.
pTAC2, -6, and -12 are components of the transcriptionally active plastid chromosome that are required for plastid gene expression.2006 · DOI: 10.1105/tpc.105.036392

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_018675 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006397 mRNA processing Biological Process
GO:0009553 embryo sac development Biological Process
GO:0009555 pollen development Biological Process
GO:0009793 embryo development ending in seed dormancy Biological Process
GO:0048868 pollen tube development Biological Process
GO:0005730 nucleolus Cellular Component
GO:0005737 cytoplasm Cellular Component
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003729 mRNA binding Molecular Function
GO:0019843 rRNA binding Molecular Function
KEGG gene cross-reference
ath:AT3G06430
ath:AT3G53170
ath:AT4G39620
ath:AT5G48730
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.

Plastid0.589
Rank 1 · LXL04_018675 · OH-1004
Mitochondrion0.256
Rank 2 · LXL04_018675 · OH-1004
Nucleus0.084
Rank 3 · LXL04_018675 · OH-1004
Cytoplasm0.031
Rank 4 · LXL04_018675 · OH-1004
Cell membrane0.011
Rank 5 · LXL04_018675 · 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_N114-251 aa
PF17177.11PPR_long120-215 aa
PF13041.13PPR_2122-168 aa
PF13812.13PPR_3150-205 aa
PF12854.14PPR_1154-186 aa
PF13041.13PPR_2158-206 aa
PF01535.27PPR161-186 aa
PF10037.16MRP-S27178-264 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_018675PF29070.1MSC6_N1142515e-2692.4
LXL04_018675PF17177.11PPR_long1202151.3e-1661.4
LXL04_018675PF13041.13PPR_21221684e-68226.0
LXL04_018675PF13812.13PPR_31502051.7e-42144.0
LXL04_018675PF12854.14PPR_11541861.3e-41140.7
LXL04_018675PF13041.13PPR_21582064e-68226.0
LXL04_018675PF01535.27PPR1611866.1e-49161.6
LXL04_018675PF10037.16MRP-S271782646.2e-1349.2
LXL04_018675PF13041.13PPR_22092414e-68226.0
LXL04_018675PF17177.11PPR_long2093331.3e-1661.4
LXL04_018675PF13812.13PPR_32162781.7e-42144.0
LXL04_018675PF29070.1MSC6_N2243895e-2692.4
LXL04_018675PF12854.14PPR_12252451.3e-41140.7
LXL04_018675PF13041.13PPR_22282764e-68226.0
LXL04_018675PF01535.27PPR2312586.1e-49161.6
LXL04_018675PF13041.13PPR_22643124e-68226.0

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
Q9FKC3Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g48730, chloroplastic70.880%Swiss-Protstrong database homology
Q9SCP4Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g5317046.575%Swiss-Protmoderate database homology
Q9SQU6Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g06430, chloroplastic43.909%Swiss-Protmoderate database homology
Q9SV96Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g39620, chloroplastic28.280%Swiss-Protweak database homology
Q9S7Q2Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g74850, chloroplastic25.728%Swiss-Protweak database homology

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