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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_031299
Reference: OH-1004 Chr: Chr07 Coordinates: 4321333-4323939 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2463 bp · LXL04_031299|LXL04_031299|OH1004|cDNA

ATGAATGCATTAAGAAAGCAGGCGTCGAATCTCGGAAAACAGACCGGTCTCAAGGAATTTACAGGAAAAGACCGCGTAACAGACGCTGTTCGTGCTCTGGCCAACTTCTACGCTGCACAGCTCTCACTATGCTCCAAACAAATCCCAACCTCGTATTCCAATGCCCGAATGGTTCATGCCCACATGATCGTTTCTGGGTTCAGGCCCAAGTCTCACATCCTCAACCGCTTAATGGACTTATACACCAAATCGTCCAACCT...

CDS

Download CDS FASTA

2463 bp · LXL04_031299|LXL04_031299|OH1004|CDS

ATGAATGCATTAAGAAAGCAGGCGTCGAATCTCGGAAAACAGACCGGTCTCAAGGAATTTACAGGAAAAGACCGCGTAACAGACGCTGTTCGTGCTCTGGCCAACTTCTACGCTGCACAGCTCTCACTATGCTCCAAACAAATCCCAACCTCGTATTCCAATGCCCGAATGGTTCATGCCCACATGATCGTTTCTGGGTTCAGGCCCAAGTCTCACATCCTCAACCGCTTAATGGACTTATACACCAAATCGTCCAACCT...

Protein

Download Protein FASTA

820 aa · LXL04_031299|LXL04_031299|OH1004|PROTEIN

MNALRKQASNLGKQTGLKEFTGKDRVTDAVRALANFYAAQLSLCSKQIPTSYSNARMVHAHMIVSGFRPKSHILNRLMDLYTKSSNLPYARQLFDEIPEPDICARTTFITAYSASGDLKLAREIFNNTPLNIRDTVSYNAMITGCAHNSDGNAAFDLFRDMKRYNFKPDNFTYTSMLSALSLIADHESHCQQLHSEIIKSGTGFVTSVINALISVYIKCASSPHVTPSLLMDAARKLFDEMPHKDEVSWTTVINGYIRND...

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_031299
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_031299
LocationChr07:4321333-4323939 (+)
DescriptionSimilar to PCMP-H74: Pentatricopeptide repeat-containing protein At1g25360
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g25360 Pentatricopeptide repeat-containing protein At1g25360. No verified direct reference in this release
At2g22070 Pentatricopeptide repeat-containing protein At2g22070. No verified direct reference in this release
At4g02750 Pentatricopeptide repeat-containing protein At4g02750. No verified direct reference in this release
At5g16860 Pentatricopeptide repeat-containing protein At5g16860. No verified direct reference in this release
At1g68930 Putative pentatricopeptide repeat-containing protein At1g68930. 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_031299 · 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: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:AT1G25360
ath:AT2G22070
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.

Mitochondrion0.612
Rank 1 · LXL04_031299 · OH-1004
Plastid0.244
Rank 2 · LXL04_031299 · OH-1004
Nucleus0.054
Rank 3 · LXL04_031299 · OH-1004
Cytoplasm0.034
Rank 4 · LXL04_031299 · OH-1004
Cell membrane0.006
Rank 5 · LXL04_031299 · 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_2133-180 aa
PF13812.13PPR_3134-179 aa
PF01535.27PPR136-165 aa
PF13041.13PPR_2245-275 aa
PF12854.14PPR_1245-272 aa
PF01535.27PPR247-274 aa
PF13041.13PPR_2279-324 aa
PF01535.27PPR279-308 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_031299PF13041.13PPR_21331803.8e-79261.3
LXL04_031299PF13812.13PPR_31341791.7e-2899.1
LXL04_031299PF01535.27PPR1361657.6e-71230.3
LXL04_031299PF13041.13PPR_22452753.8e-79261.3
LXL04_031299PF12854.14PPR_12452727.2e-38128.7
LXL04_031299PF01535.27PPR2472747.6e-71230.3
LXL04_031299PF13041.13PPR_22793243.8e-79261.3
LXL04_031299PF01535.27PPR2793087.6e-71230.3
LXL04_031299PF01535.27PPR3553787.6e-71230.3
LXL04_031299PF13041.13PPR_24124583.8e-79261.3
LXL04_031299PF01535.27PPR4144377.6e-71230.3
LXL04_031299PF13041.13PPR_25135603.8e-79261.3
LXL04_031299PF01535.27PPR5155457.6e-71230.3
LXL04_031299PF29070.1MSC6_N5186101.3e-1454.8
LXL04_031299PF20431.5E_motif6306921e-1868.0
LXL04_031299PF14432.13DYW_deaminase7288206.7e-43145.2

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
Q9FRI5Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g2536059.296%Swiss-Protstrong database homology
Q9SHZ8Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g2207039.241%Swiss-Protmoderate database homology
Q9SY02Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g0275035.811%Swiss-Protmoderate database homology
Q9LFL5Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g1686035.393%Swiss-Protmoderate database homology
Q9CAA8Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At1g6893035.354%Swiss-Protmoderate database homology

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