LXL04_026990 | RubberDandelionOmics

Gene overview

LXL04_026990

Reference: OH-1004 Chr: Chr06 Coordinates: 6615311-6619870 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1167 bp · LXL04_026990|LXL04_026990|OH1004|cDNA

ATGcaagagatggatatttcataCAAGAAATCTTCCATGGCTTTTGGTATTGTTGTTGTTGTACTCTTTGTTATTGTAATATGTTCAAAAAATCATCCTTTCCAAAGTCAGCATTTAAGAAGTAAAAAACATGCCCTTTCCAATGACCAATTCATGACTGCTTCCACCAACAGGAGGCTCTTAGCATCACCCACAGATTATGATGTTGGTGTCGGCAATGGTGGTGGTGAAGAGGGTGATGCTGGTGATTATGACGGAAA...

CDS

Download CDS FASTA

1167 bp · LXL04_026990|LXL04_026990|OH1004|CDS

ATGCAAGAGATGGATATTTCATACAAGAAATCTTCCATGGCTTTTGGTATTGTTGTTGTTGTACTCTTTGTTATTGTAATATGTTCAAAAAATCATCCTTTCCAAAGTCAGCATTTAAGAAGTAAAAAACATGCCCTTTCCAATGACCAATTCATGACTGCTTCCACCAACAGGAGGCTCTTAGCATCACCCACAGATTATGATGTTGGTGTCGGCAATGGTGGTGGTGAAGAGGGTGATGCTGGTGATTATGACGGAAA...

Protein

Download Protein FASTA

388 aa · LXL04_026990|LXL04_026990|OH1004|PROTEIN

MQEMDISYKKSSMAFGIVVVVLFVIVICSKNHPFQSQHLRSKKHALSNDQFMTASTNRRLLASPTDYDVGVGNGGGEEGDAGDYDGNGNGYDYAGGGGGGDGDDDRIRPQCSSDNIYVSQGQTPPLPSGIPTYTVIVQNICTSGGCSISDIHLSCGWFSSARLINPNLFKRIAYNDCLVNNGNAIVPGQTISFIYANTYPYPLAGLEWNFIEWIWSGYSHTRSGPGYARAFGIVAVLVVFVMCSRNHYFQGQRQYISSKE...

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.

ID Mapping

Input ID	`LXL04_026990`
TK1151 ID	TkA07G023270
OH-1004 ID	LXL04_026990
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 51.289 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 version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_026990

Location Chr06:6615311-6619870 (+)

Description Similar to TDL1: TPD1 protein homolog 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g32583`	TPD1 protein homolog 1.	No verified direct reference in this release
`At4g24972`	Involved in cell specification during anther and pollen development.	Tapetum determinant1 is required for cell specialization in the Arabidopsis anther.2003 · DOI: 10.1105/tpc.016618 Overexpression of TAPETUM DETERMINANT1 alters the cell fates in the Arabidopsis carpel and tapetum via genetic interaction with excess microsporocytes1/extra sporogenous cells.2005 · DOI: 10.1104/pp.105.063529 Signaling of cell fate determination by the TPD1 small protein and EMS1 receptor kinase.2008 · DOI: 10.1073/pnas.0708795105
`At1g05835`	Uncharacterized protein At1g05835.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os12g0472500`	Involved in cell specification during anther development.	OsTDL1A binds to the LRR domain of rice receptor kinase MSP1, and is required to limit sporocyte numbers.2008 · DOI: 10.1111/j.1365-313x.2008.03426.x MIL2 (MICROSPORELESS2) regulates early cell differentiation in the rice anther.2012 · DOI: 10.1111/j.1469-8137.2012.04270.x
`Os10g0207500`	May play a role during anther development.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_026990 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0001709 cell fate determination Biological Process

GO:0009408 response to heat Biological Process

GO:0009556 microsporogenesis Biological Process

GO:0010234 anther wall tapetum cell fate specification Biological Process

GO:0048653 anther development Biological Process

GO:0005576 extracellular region Cellular Component

GO:0005739 mitochondrion Cellular Component

KEGG gene cross-reference

ath:AT1G32583

ath:AT4G24972

dosa:Os12g0472500

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

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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.

Extracellular0.579

Rank 1 · LXL04_026990 · OH-1004

Lysosome / Vacuole0.124

Rank 2 · LXL04_026990 · OH-1004

Cytoplasm0.117

Rank 3 · LXL04_026990 · OH-1004

Endoplasmic reticulum0.109

Rank 4 · LXL04_026990 · OH-1004

Cell membrane0.077

Rank 5 · LXL04_026990 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF24068.2TPD1_C113-204 aa

PF24068.2TPD1_C290-387 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_026990	`PF24068.2`	TPD1_C	113	204	2e-77	256.1
LXL04_026990	`PF24068.2`	TPD1_C	290	387	2e-77	256.1

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q1G3T1`	Arabidopsis thaliana	TPD1 protein homolog 1	51.095%	Swiss-Prot	weak database homology
`Q6TLJ2`	Arabidopsis thaliana	Protein TAPETUM DETERMINANT 1	50.388%	Swiss-Prot	weak database homology
`A8MS78`	Arabidopsis thaliana	Uncharacterized protein At1g05835	36.986%	Swiss-Prot	weak database homology
`Q2QR54`	Oryza sativa subsp. japonica	TPD1 protein homolog 1A	48.039%	Swiss-Prot	weak database homology
`Q8S6P9`	Oryza sativa subsp. japonica	TPD1 protein homolog 1B	46.729%	Swiss-Prot	weak database homology

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