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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_029208
Reference: OH-1004 Chr: Chr06 Coordinates: 83778619-83783931 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1986 bp · LXL04_029208|LXL04_029208|OH1004|cDNA

ATGTCTCATATAAGAGAGTTTGAGCACCTCAAAATAACGTTAGAAGCAATAAAATCTGCAACCAACAACTTTGCGGCTGAAAATTGTATCGGTAGAGGCGGATTTGGAAATGTTTATAAGGGGGAAATCATCCATTCTAAGGGGCAATCCATGGTTGCCATTAAGCGTTTAGACCGGGCATTTGGGCAAGGAAACCCTGAGTTTTGGAAAGAAATTACAATGCTTTCTCTATACAAGCATGAAAATTTGGTCCATCTTTT...

CDS

Download CDS FASTA

1986 bp · LXL04_029208|LXL04_029208|OH1004|CDS

ATGTCTCATATAAGAGAGTTTGAGCACCTCAAAATAACGTTAGAAGCAATAAAATCTGCAACCAACAACTTTGCGGCTGAAAATTGTATCGGTAGAGGCGGATTTGGAAATGTTTATAAGGGGGAAATCATCCATTCTAAGGGGCAATCCATGGTTGCCATTAAGCGTTTAGACCGGGCATTTGGGCAAGGAAACCCTGAGTTTTGGAAAGAAATTACAATGCTTTCTCTATACAAGCATGAAAATTTGGTCCATCTTTT...

Protein

Download Protein FASTA

661 aa · LXL04_029208|LXL04_029208|OH1004|PROTEIN

MSHIREFEHLKITLEAIKSATNNFAAENCIGRGGFGNVYKGEIIHSKGQSMVAIKRLDRAFGQGNPEFWKEITMLSLYKHENLVHLLGFCDENDEKILVYEYAPKKSLDLYLSSNDLTWTQRLKICIGVARGLSYLHSPDTQVRVLHRDIKSSNILLDENWNAKISDFGLSKFAHANKFTFLFTSAVGTVGYCDPLYAETGFLTKESDIYSFGVVLYEMLEERPSITEVVRMLETALGYQTNEENWKPDVNDYFQEEAHL...

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_029208
TK1151 IDTkA07G284810
OH-1004 IDLXL04_029208
Relationship / confidenceMulti Candidate From Tk1151 / Complex relationship
Protein identity (%)87.100
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_029208
LocationChr06:83778619-83783931 (+)
DescriptionSimilar to TPR2: Protein TOPLESS-RELATED PROTEIN 2
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g27030 Transcriptional corepressor. No verified direct reference in this release
At3g16830 Transcriptional corepressor. No verified direct reference in this release

Rice

Reference gene IDPossible functionPapers / DOI
Os08g0162100 Transcriptional corepressor involved in branch formation regulation, presumably by suppressing primary branch formation and promoting secondary branch formation.
OsLIS-L1 encoding a lissencephaly type-1-like protein with WD40 repeats is required for plant height and male gametophyte formation in rice.2012 · DOI: 10.1007/s00425-011-1532-7
Os03g0254700 Probable downstream regulator of strigolactones signaling (By similarity).
MODD Mediates Deactivation and Degradation of OsbZIP46 to Negatively Regulate ABA Signaling and Drought Resistance in Rice.2016 · DOI: 10.1105/tpc.16.00171
Os01g0254100 Probable downstream regulator of strigolactones signaling. No verified direct reference in this release
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_029208 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006351 DNA-templated transcription Biological Process
GO:0006355 regulation of DNA-templated transcription Biological Process
GO:0009791 post-embryonic development Biological Process
GO:0010072 primary shoot apical meristem specification Biological Process
GO:0010229 inflorescence development Biological Process
GO:0048367 shoot system development Biological Process
GO:0048608 reproductive structure development Biological Process
GO:0062208 positive regulation of pattern recognition receptor signaling pathway Biological Process
GO:0005634 nucleus Cellular Component
GO:0005737 cytoplasm Cellular Component
GO:0005886 plasma membrane Cellular Component
GO:0140311 protein sequestering activity Molecular Function
KEGG gene cross-reference
ath:AT3G16830
ath:AT5G27030
dosa:Os01g0254100
dosa:Os03g0254700
dosa:Os08g0162100
osa:4332285
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.

Cytoplasm0.443
Rank 1 · LXL04_029208 · OH-1004
Nucleus0.309
Rank 2 · LXL04_029208 · OH-1004
Cell membrane0.261
Rank 3 · LXL04_029208 · OH-1004
Lysosome / Vacuole0.093
Rank 4 · LXL04_029208 · OH-1004
Golgi apparatus0.080
Rank 5 · LXL04_029208 · 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.

PF07714.24PK_Tyr_Ser-Thr27-222 aa
PF00069.32Pkinase27-227 aa
PF23381.2Beta-prop_IFT122_1st336-473 aa
PF24814.2WD40_Prp19343-471 aa
PF24807.2WD40_CDC20-Fz344-471 aa
PF25174.2Beta-prop_THOC3354-456 aa
PF24817.2WD40_WDHD1_1st355-582 aa
PF25173.2Beta-prop_WDR3_1st359-471 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_029208PF07714.24PK_Tyr_Ser-Thr272221.6e-41143.1
LXL04_029208PF00069.32Pkinase272272.3e-41142.7
LXL04_029208PF23381.2Beta-prop_IFT122_1st3364732.5e-1350.7
LXL04_029208PF24814.2WD40_Prp193434719.3e-1555.1
LXL04_029208PF24807.2WD40_CDC20-Fz3444713.8e-1143.5
LXL04_029208PF25174.2Beta-prop_THOC33544562.4e-0937.3
LXL04_029208PF24817.2WD40_WDHD1_1st3555821.1e-1248.5
LXL04_029208PF25173.2Beta-prop_WDR3_1st3594711.6e-1558.0
LXL04_029208PF25168.2Beta-prop_WDR36-Utp21_2nd3594717.2e-0729.5
LXL04_029208PF24796.2WDR553594724.8e-0626.6
LXL04_029208PF25175.2Beta-prop_WDR53635799.7e-1452.0
LXL04_029208PF23414.2Beta-prop_EML_23634712.4e-1041.0
LXL04_029208PF25172.2Beta-prop_WDR3_2nd3694759e-0832.4
LXL04_029208PF25171.2Beta-prop_WDR36-Utp21_1st3764597.4e-1039.4
LXL04_029208PF23383.2Beta-prop_IFT140_1st3814662.1e-0627.4
LXL04_029208PF23393.3Beta-prop_WDR90_POC16_2nd3874692e-0834.6

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
Q84JM4Arabidopsis thalianaTopless-related protein 354.933%Swiss-Protmoderate database homology
Q9LRZ0Arabidopsis thalianaTopless-related protein 253.867%Swiss-Protmoderate database homology
Q0J7U6Oryza sativa subsp. japonicaProtein TOPLESS-RELATED PROTEIN 259.474%Swiss-Protmoderate database homology
Q10NY2Oryza sativa subsp. japonicaProtein TPR353.050%Swiss-Protmoderate database homology
Q5NBT9Oryza sativa subsp. japonicaProtein TPR153.927%Swiss-Protmoderate database homology

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