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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_020685
Reference: OH-1004 Chr: Chr04 Coordinates: 104894729-104896195 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1467 bp · LXL04_020685|LXL04_020685|OH1004|cDNA

ATGCCAAGAACAACAGTGAAACAAATCTTCAATCTTCGATCTTATGCCTATTATCGCCCAATTCCACTCCAATTCACCACAAATGCACTCGCCAACCAAGAAAAATTTAATCTTGTTATTTCAAAAGTTCAATCCGGAACTGGAAGGACCGATAATGAAATATTCAAGTCTCTAATTCACGATCAATCTTGTACCACCATACCCATCTCTGACAACCTTATATCCCACCTATTACACCGATTCAAAGACGACTGGAAGTC...

CDS

Download CDS FASTA

1467 bp · LXL04_020685|LXL04_020685|OH1004|CDS

ATGCCAAGAACAACAGTGAAACAAATCTTCAATCTTCGATCTTATGCCTATTATCGCCCAATTCCACTCCAATTCACCACAAATGCACTCGCCAACCAAGAAAAATTTAATCTTGTTATTTCAAAAGTTCAATCCGGAACTGGAAGGACCGATAATGAAATATTCAAGTCTCTAATTCACGATCAATCTTGTACCACCATACCCATCTCTGACAACCTTATATCCCACCTATTACACCGATTCAAAGACGACTGGAAGTC...

Protein

Download Protein FASTA

488 aa · LXL04_020685|LXL04_020685|OH1004|PROTEIN

MPRTTVKQIFNLRSYAYYRPIPLQFTTNALANQEKFNLVISKVQSGTGRTDNEIFKSLIHDQSCTTIPISDNLISHLLHRFKDDWKSSLAIFKWAESQKGHTPLPNSYAIILDTLGKSKQIEKMMSLLTQTPHHDVTLTSISKVMRRLCGAGKWQKAVKIFDDLNTFGLQKNTESMNLLLDTLCKENKVEQARKIFLELKSCIPPTPHTFNIFIHGWCKVNRVEEAHWTIQEMKGYGFSPSVITYSTIIKSYCQNHNFDN...

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_020685
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_020685
LocationChr04:104894729-104896195 (-)
DescriptionSimilar to At3g04130: Pentatricopeptide repeat-containing protein At3g04130, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g04130 Pentatricopeptide repeat-containing protein At3g04130, mitochondrial. No verified direct reference in this release
At3g22670 Pentatricopeptide repeat-containing protein At3g22670, mitochondrial. No verified direct reference in this release
At1g74900 Required for the trans-splicing of intron 1 of the mitochondrial nad1 transcript encoding the ND1 subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I).
The pentatricopeptide repeat gene OTP43 is required for trans-splicing of the mitochondrial nad1 Intron 1 in Arabidopsis thaliana.2007 · DOI: 10.1105/tpc.107.054841
At5g43820 Putative pentatricopeptide repeat-containing protein At5g43820. No verified direct reference in this release
At1g20300 Pentatricopeptide repeat-containing protein At1g20300, 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_020685 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006397 mRNA processing Biological Process
GO:0008380 RNA splicing Biological Process
GO:0005737 cytoplasm Cellular Component
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT1G74900
ath:AT3G04130
ath:AT3G22670
ath:AT5G43820
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.

Mitochondrion0.880
Rank 1 · LXL04_020685 · OH-1004
Plastid0.051
Rank 2 · LXL04_020685 · OH-1004
Nucleus0.048
Rank 3 · LXL04_020685 · OH-1004
Cytoplasm0.032
Rank 4 · LXL04_020685 · OH-1004
Cell membrane0.011
Rank 5 · LXL04_020685 · 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_N140-266 aa
PF13041.13PPR_2172-214 aa
PF12854.14PPR_1202-227 aa
PF13041.13PPR_2207-254 aa
PF01535.27PPR209-238 aa
PF17177.11PPR_long223-330 aa
PF13812.13PPR_3231-284 aa
PF12854.14PPR_1237-269 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_020685PF29070.1MSC6_N1402662.6e-1970.3
LXL04_020685PF13041.13PPR_21722142.5e-57191.5
LXL04_020685PF12854.14PPR_12022271.3e-51172.7
LXL04_020685PF13041.13PPR_22072542.5e-57191.5
LXL04_020685PF01535.27PPR2092389.7e-45148.5
LXL04_020685PF17177.11PPR_long2233307.3e-1762.2
LXL04_020685PF13812.13PPR_32312842.4e-2898.7
LXL04_020685PF12854.14PPR_12372691.3e-51172.7
LXL04_020685PF13041.13PPR_22402852.5e-57191.5
LXL04_020685PF23276.3TPR_242413352.7e-1453.9
LXL04_020685PF01535.27PPR2432739.7e-45148.5
LXL04_020685PF13812.13PPR_32633222.4e-2898.7
LXL04_020685PF13041.13PPR_22753122.5e-57191.5
LXL04_020685PF12854.14PPR_13073361.3e-51172.7
LXL04_020685PF13041.13PPR_23103362.5e-57191.5
LXL04_020685PF17177.11PPR_long3154017.3e-1762.2

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
Q9M8W9Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g04130, mitochondrial51.316%Swiss-Protstrong database homology
Q9LUJ4Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g22670, mitochondrial37.857%Swiss-Protmoderate database homology
Q9S7R4Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g74900, mitochondrial28.607%Swiss-Protweak database homology
P0C8R0Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At5g4382027.387%Swiss-Protweak database homology
Q9LN22Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g20300, mitochondrial27.461%Swiss-Protweak database homology

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