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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_036631
Reference: OH-1004 Chr: Chr08 Coordinates: 45683667-45686231 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2565 bp · LXL04_036631|LXL04_036631|OH1004|cDNA

ATGTTATCACGATGCAAACCTCCGGAATCCATCCTCGGCTACATTTTATCAACCCTAGACAGCAAATTCTTAACCCCAAAACAACTTCAACAAATCCATAGTCAAATCCTCACAAATGGTTATCTCGTTTCAACTCCCATTATCACCACCTTCTTATATTCTTGCTACCATTCTCGTAACCCCATTTACGCGTTACAGTTCCTATATAACTTACCTGGGTCGTTTTCAAAATCTTCCTTCTGGGGTTCCATGATTAAACC...

CDS

Download CDS FASTA

2565 bp · LXL04_036631|LXL04_036631|OH1004|CDS

ATGTTATCACGATGCAAACCTCCGGAATCCATCCTCGGCTACATTTTATCAACCCTAGACAGCAAATTCTTAACCCCAAAACAACTTCAACAAATCCATAGTCAAATCCTCACAAATGGTTATCTCGTTTCAACTCCCATTATCACCACCTTCTTATATTCTTGCTACCATTCTCGTAACCCCATTTACGCGTTACAGTTCCTATATAACTTACCTGGGTCGTTTTCAAAATCTTCCTTCTGGGGTTCCATGATTAAACC...

Protein

Download Protein FASTA

854 aa · LXL04_036631|LXL04_036631|OH1004|PROTEIN

MLSRCKPPESILGYILSTLDSKFLTPKQLQQIHSQILTNGYLVSTPIITTFLYSCYHSRNPIYALQFLYNLPGSFSKSSFWGSMIKPSLESNNLRDFFTCYNAMMWCRGYDANSPSVGMFASVFQYGAKMGDSQLGKLFHCVVAKWGLDSDLVLQTGLLDFYAKTGDLRSAKKVFEEMSHRDVVACNVMISVLGKHGLIEDARVLFDSMPEKDSYSWNSIISCYFKIGDIESARLIFDRNPIKNTISWNVLIDGYSKSGY...

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.

Download Gene (CDS) Download Protein

ID Mapping

Input IDLXL04_036631
TK1151 IDTkA01G000650
OH-1004 IDLXL04_036631
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)74.000
Protein coverage (%)TK1151 100.000 / OH-1004 67.096
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_036631
LocationChr08:45683667-45686231 (-)
DescriptionSimilar to PCMP-H24: Pentatricopeptide repeat-containing protein At4g02750
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g02750 Pentatricopeptide repeat-containing protein At4g02750. No verified direct reference in this release
At1g09410 Pentatricopeptide repeat-containing protein At1g09410, mitochondrial. No verified direct reference in this release
At2g27610 Pentatricopeptide repeat-containing protein At2g27610. No verified direct reference in this release
At2g29760 Involved in RNA editing event in chloroplasts.
A study of new Arabidopsis chloroplast RNA editing mutants reveals general features of editing factors and their target sites.2009 · DOI: 10.1105/tpc.109.071472
At1g56690 Pentatricopeptide repeat-containing protein At1g56690, 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_036631 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0009451 RNA modification Biological Process
GO:0010214 seed coat development Biological Process
GO:0048731 system development Biological Process
GO:0140547 acquisition of seed longevity Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT1G09410
ath:AT4G02750
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.

Mitochondrion0.607
Rank 1 · LXL04_036631 · OH-1004
Plastid0.239
Rank 2 · LXL04_036631 · OH-1004
Nucleus0.059
Rank 3 · LXL04_036631 · OH-1004
Cytoplasm0.046
Rank 4 · LXL04_036631 · OH-1004
Peroxisome0.007
Rank 5 · LXL04_036631 · 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_2181-212 aa
PF01535.27PPR184-212 aa
PF13041.13PPR_2351-382 aa
PF01535.27PPR356-382 aa
PF01535.27PPR385-407 aa
PF13041.13PPR_2412-445 aa
PF12854.14PPR_1413-440 aa
PF01535.27PPR415-443 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_036631PF13041.13PPR_21812127.9e-73241.1
LXL04_036631PF01535.27PPR1842126.5e-77249.3
LXL04_036631PF13041.13PPR_23513827.9e-73241.1
LXL04_036631PF01535.27PPR3563826.5e-77249.3
LXL04_036631PF01535.27PPR3854076.5e-77249.3
LXL04_036631PF13041.13PPR_24124457.9e-73241.1
LXL04_036631PF12854.14PPR_14134401.5e-47159.7
LXL04_036631PF01535.27PPR4154436.5e-77249.3
LXL04_036631PF13041.13PPR_24464947.9e-73241.1
LXL04_036631PF01535.27PPR4484766.5e-77249.3
LXL04_036631PF23276.3TPR_244505421.3e-1455.0
LXL04_036631PF29070.1MSC6_N5025851.8e-1454.3
LXL04_036631PF01535.27PPR5215486.5e-77249.3
LXL04_036631PF13041.13PPR_25465947.9e-73241.1
LXL04_036631PF01535.27PPR5505796.5e-77249.3
LXL04_036631PF20431.5E_motif6647261.5e-1970.7

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
Q9SY02Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g0275039.398%Swiss-Protmoderate database homology
Q56XI1Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g09410, mitochondrial38.561%Swiss-Protmoderate database homology
Q9ZUW3Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g2761035.422%Swiss-Protmoderate database homology
O82380Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g29760, chloroplastic36.544%Swiss-Protmoderate database homology
Q9FXB9Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g56690, mitochondrial37.176%Swiss-Protmoderate database homology

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