LXL04_000052 | RubberDandelionOmics

Gene overview

LXL04_000052

Reference: OH-1004 Chr: Chr01 Coordinates: 1228797-1230924 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

438 bp · LXL04_000052|LXL04_000052|OH1004|cDNA

ATGCTTCGGCTTGGCGGTTTCAACCGATGCTTCTTAGAGTGCCTAGAACTGATTAGCCATGCTCCAGAAGGGGAATACTCAAAAATGGGCCCATTTCGCATATTGAGTTTTGACATTGAGTGTGCGGGTCGTAAGGGCCTTTTCCCTGAACCTACACATGATCCTGTTATTCAGATTGCAAATCTGGTGACCCTGCAGGGAGAGGAACAACCGTTTGTGAAAAATGTCATGACCTTAAAATCATGTTCACCAATTGTTGG...

CDS

Download CDS FASTA

438 bp · LXL04_000052|LXL04_000052|OH1004|CDS

ATGCTTCGGCTTGGCGGTTTCAACCGATGCTTCTTAGAGTGCCTAGAACTGATTAGCCATGCTCCAGAAGGGGAATACTCAAAAATGGGCCCATTTCGCATATTGAGTTTTGACATTGAGTGTGCGGGTCGTAAGGGCCTTTTCCCTGAACCTACACATGATCCTGTTATTCAGATTGCAAATCTGGTGACCCTGCAGGGAGAGGAACAACCGTTTGTGAAAAATGTCATGACCTTAAAATCATGTTCACCAATTGTTGG...

Protein

Download Protein FASTA

145 aa · LXL04_000052|LXL04_000052|OH1004|PROTEIN

MLRLGGFNRCFLECLELISHAPEGEYSKMGPFRILSFDIECAGRKGLFPEPTHDPVIQIANLVTLQGEEQPFVKNVMTLKSCSPIVGVDVMSFDTEREVLLAWRVIQYGTRESKEVTLEGRVQFDLLQVPVEDGHCAKMGKMMGT

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_000052`
TK1151 ID	TkA01G638430
OH-1004 ID	LXL04_000052
Relationship / confidence	Multi Candidate From Tk1151 / Complex relationship
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 80.690 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_000052

Location Chr01:1228797-1230924 (+)

Description Similar to POLD1: DNA polymerase delta catalytic subunit

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g63960`	This polymerase possesses two enzymatic activities: DNA synthesis (polymerase) and an exonucleolytic activity that degrades single-stranded DNA in the 3'- to 5'-direction.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os11g0186400`	This polymerase possesses two enzymatic activities: DNA synthesis (polymerase) and an exonucleolytic activity that degrades single-stranded DNA in the 3'- to 5'-direction.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_000052 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006261 DNA-templated DNA replication Biological Process

GO:0006278 RNA-templated DNA biosynthetic process Biological Process

GO:0006287 base-excision repair, gap-filling Biological Process

GO:0006297 nucleotide-excision repair, DNA gap filling Biological Process

GO:0006303 double-strand break repair via nonhomologous end joining Biological Process

GO:0043137 DNA replication, removal of RNA primer Biological Process

GO:0045004 DNA replication proofreading Biological Process

GO:1903459 mitotic DNA replication lagging strand elongation Biological Process

GO:1904161 DNA synthesis involved in UV-damage excision repair Biological Process

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0043625 delta DNA polymerase complex Cellular Component

KEGG gene cross-reference

ath:AT5G63960

dme:Dmel_CG5949

dosa:Os11g0186400

gmx:548092

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.

Cytoplasm0.476

Rank 1 · LXL04_000052 · OH-1004

Nucleus0.422

Rank 2 · LXL04_000052 · OH-1004

Mitochondrion0.116

Rank 3 · LXL04_000052 · OH-1004

Endoplasmic reticulum0.072

Rank 4 · LXL04_000052 · OH-1004

Extracellular0.063

Rank 5 · LXL04_000052 · 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.

PF03104.26DNA_pol_B_exo117-103 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_000052	`PF03104.26`	DNA_pol_B_exo1	17	103	7.3e-21	75.4

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
`Q9LVN7`	Arabidopsis thaliana	DNA polymerase delta catalytic subunit	54.645%	Swiss-Prot	strong database homology
`Q9LRE6`	Oryza sativa subsp. japonica	DNA polymerase delta catalytic subunit	80.769%	Swiss-Prot	strong database homology

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