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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_005011
Reference: OH-1004 Chr: Chr01 Coordinates: 152947671-152954930 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2691 bp · LXL04_005011|LXL04_005011|OH1004|cDNA

ATGTCTATAATCGCTGTATCAAAACCCCATGTATTGAAACACAGCTTCTTCTCTAATCTCGCAAGAATTTCCAATTCACAGCATCAAGGTCTCTACTTTTTCTGTTCATCGACTTCTTCAAATGAACCCACAAATGAAGAAATCCCGAAACCGGAAACTCCAGATTCGTCCACCGAACCACATCCTGAGAAACCGGTCTCGACCATTGAAGCACAACCAGGGACGATCCAGAATCGCGAACCCAGACTCCCACGAGGTAA...

CDS

Download CDS FASTA

2691 bp · LXL04_005011|LXL04_005011|OH1004|CDS

ATGTCTATAATCGCTGTATCAAAACCCCATGTATTGAAACACAGCTTCTTCTCTAATCTCGCAAGAATTTCCAATTCACAGCATCAAGGTCTCTACTTTTTCTGTTCATCGACTTCTTCAAATGAACCCACAAATGAAGAAATCCCGAAACCGGAAACTCCAGATTCGTCCACCGAACCACATCCTGAGAAACCGGTCTCGACCATTGAAGCACAACCAGGGACGATCCAGAATCGCGAACCCAGACTCCCACGAGGTAA...

Protein

Download Protein FASTA

896 aa · LXL04_005011|LXL04_005011|OH1004|PROTEIN

MSIIAVSKPHVLKHSFFSNLARISNSQHQGLYFFCSSTSSNEPTNEEIPKPETPDSSTEPHPEKPVSTIEAQPGTIQNREPRLPRGKHRNPEKIEDIICRMMANRAWTTRLQNSIRTLVPAFDHNLVYNVLHSARHPDHALQFFRWVERSGLFKHDRETHYKIIDILGKASKLNHARLILLDMPKKGLKWDEDLFVVLIDSYGKAGIVQESVKIFRSMEELGVPRTIKSYDTLFKVIMRRGRYMMAKRYFNKMLSEDIIP...

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_005011
TK1151 IDTkA01G085470
OH-1004 IDLXL04_005011
Relationship / confidenceRbh Sequence Supported / Probable
Protein identity (%)90.900
Protein coverage (%)TK1151 90.980 / OH-1004 77.679
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_005011
LocationChr01:152947671-152954930 (-)
DescriptionSimilar to At2g37230: Pentatricopeptide repeat-containing protein At2g37230
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g37230 Large ribosomal subunit protein mL102 (rPPR5). No verified direct reference in this release
At1g02060 Pentatricopeptide repeat-containing protein At1g02060, chloroplastic. No verified direct reference in this release
At1g05670 Pentatricopeptide repeat-containing protein At1g05670, mitochondrial. No verified direct reference in this release
At5g65560 Pentatricopeptide repeat-containing protein At5g65560. No verified direct reference in this release
At2g02150 Putative pentatricopeptide repeat-containing protein At2g02150. 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_005011 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0009409 response to cold Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0005783 endoplasmic reticulum Cellular Component
GO:0005794 Golgi apparatus Cellular Component
GO:0005840 ribosome Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0009534 chloroplast thylakoid Cellular Component
GO:0009535 chloroplast thylakoid membrane Cellular Component
GO:1990904 ribonucleoprotein complex Cellular Component
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT1G02060
ath:AT1G05670
ath:AT2G37230
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.

Mitochondrion0.850
Rank 1 · LXL04_005011 · OH-1004
Plastid0.096
Rank 2 · LXL04_005011 · OH-1004
Nucleus0.061
Rank 3 · LXL04_005011 · OH-1004
Cytoplasm0.039
Rank 4 · LXL04_005011 · OH-1004
Cell membrane0.016
Rank 5 · LXL04_005011 · 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_N161-321 aa
PF13812.13PPR_3213-269 aa
PF13041.13PPR_2227-272 aa
PF13041.13PPR_2264-307 aa
PF17177.11PPR_long278-374 aa
PF13812.13PPR_3284-343 aa
PF29070.1MSC6_N289-392 aa
PF12854.14PPR_1292-324 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_005011PF29070.1MSC6_N1613213.5e-1660.0
LXL04_005011PF13812.13PPR_32132691.4e-33115.5
LXL04_005011PF13041.13PPR_22272722.2e-73242.9
LXL04_005011PF13041.13PPR_22643072.2e-73242.9
LXL04_005011PF17177.11PPR_long2783749.8e-1968.3
LXL04_005011PF13812.13PPR_32843431.4e-33115.5
LXL04_005011PF29070.1MSC6_N2893923.5e-1660.0
LXL04_005011PF12854.14PPR_12923244.8e-46154.9
LXL04_005011PF13041.13PPR_22953432.2e-73242.9
LXL04_005011PF01535.27PPR2983283.8e-56184.2
LXL04_005011PF12854.14PPR_13263594.8e-46154.9
LXL04_005011PF13041.13PPR_23303782.2e-73242.9
LXL04_005011PF01535.27PPR3333623.8e-56184.2
LXL04_005011PF17177.11PPR_long3484789.8e-1968.3
LXL04_005011PF12854.14PPR_13623944.8e-46154.9
LXL04_005011PF13041.13PPR_24094452.2e-73242.9

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
Q9ZUU3Arabidopsis thalianaLarge ribosomal subunit protein mL102 (rPPR5)58.136%Swiss-Protstrong database homology
O81908Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g02060, chloroplastic30.948%Swiss-Protmoderate database homology
Q0WVK7Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g05670, mitochondrial24.236%Swiss-Protweak database homology
Q9LSL9Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g6556022.404%Swiss-Protweak database homology
P0C894Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At2g0215024.572%Swiss-Protweak database homology

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