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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_035634
Reference: OH-1004 Chr: Chr08 Coordinates: 25970513-25974401 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2820 bp · LXL04_035634|LXL04_035634|OH1004|cDNA

ATGGATAACTTCTCCCTTGCTTCCACCACCACACACTACTGCTCTACTTTCTCCGGTAAGCTATACTCTGTTTCCGCCACCACCCGCCCTTTCTACTCCATCCCCACTTGCTCCCATGACTCTGAAAACcccaccacctccacctcctcctcccTCCGCCGCCCCACCAACAACAAACCCTTAAAACCCATCACCAGCTCCCCCACCAACCCCCAACCTCCGAAACCCAAAACCCACATCCCCAATCCCCTTCAAACACT...

CDS

Download CDS FASTA

2820 bp · LXL04_035634|LXL04_035634|OH1004|CDS

ATGGATAACTTCTCCCTTGCTTCCACCACCACACACTACTGCTCTACTTTCTCCGGTAAGCTATACTCTGTTTCCGCCACCACCCGCCCTTTCTACTCCATCCCCACTTGCTCCCATGACTCTGAAAACCCCACCACCTCCACCTCCTCCTCCCTCCGCCGCCCCACCAACAACAAACCCTTAAAACCCATCACCAGCTCCCCCACCAACCCCCAACCTCCGAAACCCAAAACCCACATCCCCAATCCCCTTCAAACACT...

Protein

Download Protein FASTA

939 aa · LXL04_035634|LXL04_035634|OH1004|PROTEIN

MDNFSLASTTTHYCSTFSGKLYSVSATTRPFYSIPTCSHDSENPTTSTSSSLRRPTNNKPLKPITSSPTNPQPPKPKTHIPNPLQTLKRNPIGNNNSQTLTEKLWLTSKLSPPPPPPPPPPPAPPQPPPHSSSAYETNLDEIENTRNLGPMQIEYREKGKIFVGNLPLWIKKNEVTEFFRQFGPIKNVILIKGYNETERNMGFGFVIYGGTTAENSAMKAVEFDGMEFHGRVLTVKLDDGRRMKEKSADRARWIEGDDSI...

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_035634
TK1151 IDTkA04G117950
OH-1004 IDLXL04_035634
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)100.000
Protein coverage (%)TK1151 6.835 / OH-1004 4.047
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_035634
LocationChr08:25970513-25974401 (+)
DescriptionSimilar to PPR4: Pentatricopeptide repeat-containing protein At5g04810, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g04810 May play a role in the plastid ribosome biogenesis. No verified direct reference in this release
At3g53700 May be involved in female gametophyte development. No verified direct reference in this release
At1g05670 Pentatricopeptide repeat-containing protein At1g05670, mitochondrial. No verified direct reference in this release
At1g12775 Pentatricopeptide repeat-containing protein At1g12775, mitochondrial. No verified direct reference in this release
At1g62670 Pentatricopeptide repeat-containing protein At1g62670, mitochondrial. 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_035634 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0008380 RNA splicing Biological Process
GO:0009793 embryo development ending in seed dormancy Biological Process
GO:0009880 embryonic pattern specification Biological Process
GO:0010239 chloroplast mRNA processing Biological Process
GO:0048366 leaf development Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0005783 endoplasmic reticulum Cellular Component
GO:0005794 Golgi apparatus Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0042644 chloroplast nucleoid Cellular Component
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT1G05670
ath:AT3G53700
ath:AT5G04810
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.

Plastid0.510
Rank 1 · LXL04_035634 · OH-1004
Mitochondrion0.335
Rank 2 · LXL04_035634 · OH-1004
Nucleus0.069
Rank 3 · LXL04_035634 · OH-1004
Cytoplasm0.023
Rank 4 · LXL04_035634 · OH-1004
Cell membrane0.011
Rank 5 · LXL04_035634 · 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.

PF00076.29RRM_1161-233 aa
PF13041.13PPR_2308-349 aa
PF29070.1MSC6_N311-397 aa
PF23276.3TPR_24314-430 aa
PF17177.11PPR_long319-392 aa
PF13812.13PPR_3326-383 aa
PF13041.13PPR_2336-385 aa
PF01535.27PPR340-369 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_035634PF00076.29RRM_11612335.5e-1349.3
LXL04_035634PF13041.13PPR_23083494.8e-122398.7
LXL04_035634PF29070.1MSC6_N3113974.3e-40138.7
LXL04_035634PF23276.3TPR_243144304.2e-44150.4
LXL04_035634PF17177.11PPR_long3193927.4e-57192.8
LXL04_035634PF13812.13PPR_33263838.8e-78257.1
LXL04_035634PF13041.13PPR_23363854.8e-122398.7
LXL04_035634PF01535.27PPR3403698.5e-90289.7
LXL04_035634PF17177.11PPR_long3845207.4e-57192.8
LXL04_035634PF13041.13PPR_24074534.8e-122398.7
LXL04_035634PF29070.1MSC6_N4255284.3e-40138.7
LXL04_035634PF13812.13PPR_34304908.8e-78257.1
LXL04_035634PF23276.3TPR_244655704.2e-44150.4
LXL04_035634PF12854.14PPR_14735053e-93305.9
LXL04_035634PF13041.13PPR_24765254.8e-122398.7
LXL04_035634PF01535.27PPR4795098.5e-90289.7

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
Q0WMY5Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g04810, chloroplastic73.082%Swiss-Protstrong database homology
Q9LFF1Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g53700, chloroplastic27.160%Swiss-Protweak database homology
Q0WVK7Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g05670, mitochondrial29.555%Swiss-Protweak database homology
Q9LPX2Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g12775, mitochondrial25.771%Swiss-Protweak database homology
Q9SXD1Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g62670, mitochondrial25.944%Swiss-Protweak database homology

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