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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_000123
Reference: OH-1004 Chr: Chr01 Coordinates: 2798539-2800464 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1926 bp · LXL04_000123|LXL04_000123|OH1004|cDNA

ATGCCCAGCAGCGTTACTATCGTTACTTTAATCAGGAAACGACTGAGTTCAAAAGGGTTCTCCCAAATTCGGCACTTTTCAGTTATCAGCCCAAAAAAATCACCCGAAAACGAGCAAAATCCAGAGACCGAAGCACCAATTCATGAAGACATTTTTAAATCTGGCCAGAAACTGGGTTCCTTTAGAGTGGGTGACTCCACATTTTACACCCTCATCGACAACTTCGCAAAAACAGGAGACTTCATATCGTTGGAGAAGGT...

CDS

Download CDS FASTA

1926 bp · LXL04_000123|LXL04_000123|OH1004|CDS

ATGCCCAGCAGCGTTACTATCGTTACTTTAATCAGGAAACGACTGAGTTCAAAAGGGTTCTCCCAAATTCGGCACTTTTCAGTTATCAGCCCAAAAAAATCACCCGAAAACGAGCAAAATCCAGAGACCGAAGCACCAATTCATGAAGACATTTTTAAATCTGGCCAGAAACTGGGTTCCTTTAGAGTGGGTGACTCCACATTTTACACCCTCATCGACAACTTCGCAAAAACAGGAGACTTCATATCGTTGGAGAAGGT...

Protein

Download Protein FASTA

641 aa · LXL04_000123|LXL04_000123|OH1004|PROTEIN

MPSSVTIVTLIRKRLSSKGFSQIRHFSVISPKKSPENEQNPETEAPIHEDIFKSGQKLGSFRVGDSTFYTLIDNFAKTGDFISLEKVFSQMKRERRVFTENNFILVFKAYGKAKKPMKALDLFDKMWVEYQCRPTVRSFNSVINVVIQEGFLHKALDFYTSIIIQEKRVSPNVLTYNLILKVLCRLQLIDKAIETLREMPFKKCTPDVFTYCTLMDGLCKEDRINEAVCLLDEMQVEGCFPNAPTFNVLINGLCKKGDLS...

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_000123
TK1151 IDTkA01G632620
OH-1004 IDLXL04_000123
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)85.300
Protein coverage (%)TK1151 100.000 / OH-1004 100.000
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_000123
LocationChr01:2798539-2800464 (+)
DescriptionSimilar to EMB1025: Pentatricopeptide repeat-containing protein At4g20090
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g20090 May play a role in embryogenesis. No verified direct reference in this release
At5g64320 Pentatricopeptide repeat-containing protein At5g64320, mitochondrial. No verified direct reference in this release
At5g39710 Pentatricopeptide repeat-containing protein At5g39710. No verified direct reference in this release
At1g74580 Putative pentatricopeptide repeat-containing protein At1g74580. No verified direct reference in this release
At1g09900 Pentatricopeptide repeat-containing protein At1g09900. 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_000123 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0009793 embryo development ending in seed dormancy Biological Process
GO:0032543 mitochondrial translation Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003723 RNA binding Molecular Function
KEGG gene cross-reference
ath:AT4G20090
ath:AT5G64320
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.

Mitochondrion0.834
Rank 1 · LXL04_000123 · OH-1004
Plastid0.096
Rank 2 · LXL04_000123 · OH-1004
Nucleus0.057
Rank 3 · LXL04_000123 · OH-1004
Cytoplasm0.030
Rank 4 · LXL04_000123 · OH-1004
Cell membrane0.011
Rank 5 · LXL04_000123 · 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_N65-196 aa
PF17177.11PPR_long95-235 aa
PF13041.13PPR_2134-185 aa
PF23276.3TPR_24164-265 aa
PF12854.14PPR_1168-199 aa
PF13041.13PPR_2171-220 aa
PF12854.14PPR_1203-235 aa
PF01535.27PPR209-239 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_000123PF29070.1MSC6_N651963.9e-31109.2
LXL04_000123PF17177.11PPR_long952353.2e-2692.7
LXL04_000123PF13041.13PPR_21341855.1e-149485.0
LXL04_000123PF23276.3TPR_241642652.2e-2899.5
LXL04_000123PF12854.14PPR_11681998.7e-126410.0
LXL04_000123PF13041.13PPR_21712205.1e-149485.0
LXL04_000123PF12854.14PPR_12032358.7e-126410.0
LXL04_000123PF01535.27PPR2092391.8e-97313.7
LXL04_000123PF29070.1MSC6_N2103023.9e-31109.2
LXL04_000123PF13041.13PPR_22132555.1e-149485.0
LXL04_000123PF17177.11PPR_long2243363.2e-2692.7
LXL04_000123PF13812.13PPR_32302851.5e-58195.5
LXL04_000123PF12854.14PPR_12382698.7e-126410.0
LXL04_000123PF13041.13PPR_22412895.1e-149485.0
LXL04_000123PF01535.27PPR2452741.8e-97313.7
LXL04_000123PF23276.3TPR_242613742.2e-2899.5

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
O49436Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g2009058.224%Swiss-Protstrong database homology
Q9FMF6Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g64320, mitochondrial30.240%Swiss-Protmoderate database homology
Q9FIX3Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g3971030.427%Swiss-Protmoderate database homology
Q9CA58Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At1g7458030.268%Swiss-Protmoderate database homology
Q3EDF8Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g0990030.905%Swiss-Protmoderate database homology

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