LXL04_027617 | RubberDandelionOmics

Gene overview

LXL04_027617

Reference: OH-1004 Chr: Chr06 Coordinates: 20387743-20393642 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3666 bp · LXL04_027617|LXL04_027617|OH1004|cDNA

ATGAAGTCCGAAGCAGCAGCAAAGGTTTCAGGGAGGCATAGAATGACGCCGCACCTACCCAACAATCCCGACTATGAGCCGTTAAGGGAGCTTTTCAGCCACCATATTCATTCATTCGACCACTTCATCGAGTATGGTTTAGAGAAGGCGCTTATGAACATCAAGCCCATCGAGGTCGTGGATTCTAACACCGAGTTGAAGCTAAGAAATATCCTTTTACTTGTCTTCTTAAACTTTTGTTGGCTTCTTATTGACTGCAT...

CDS

Download CDS FASTA

3666 bp · LXL04_027617|LXL04_027617|OH1004|CDS

ATGAAGTCCGAAGCAGCAGCAAAGGTTTCAGGGAGGCATAGAATGACGCCGCACCTACCCAACAATCCCGACTATGAGCCGTTAAGGGAGCTTTTCAGCCACCATATTCATTCATTCGACCACTTCATCGAGTATGGTTTAGAGAAGGCGCTTATGAACATCAAGCCCATCGAGGTCGTGGATTCTAACACCGAGTTGAAGCTAAGAAATATCCTTTTACTTGTCTTCTTAAACTTTTGTTGGCTTCTTATTGACTGCAT...

Protein

Download Protein FASTA

1221 aa · LXL04_027617|LXL04_027617|OH1004|PROTEIN

MKSEAAAKVSGRHRMTPHLPNNPDYEPLRELFSHHIHSFDHFIEYGLEKALMNIKPIEVVDSNTELKLRNILLLVFLNFCWLLIDCILYNLNYYVKFCYILDHILLWFEKPELYPPQKDRLSRTLRESLYPYECRHAKISYTGKFLVDVCFKYGDGPGGAVIREKINFGQLPVMLKSKLCHLKGADHQKLVSCKEEPSEMGGYFILNGLERVVRLLVVPKRNYPTSMERSAFKNRREGFTDKAVVIRCVREDQSAVTVNL...

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_027617`
TK1151 ID	TkA07G078970
OH-1004 ID	LXL04_027617
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.200
Protein coverage (%)	TK1151 100.000 / OH-1004 85.831 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_027617

Location Chr06:20387743-20393642 (+)

Description Similar to NRPA2: DNA-directed RNA polymerase I subunit 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g29940`	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	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_027617 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0006361 transcription initiation at RNA polymerase I promoter Biological Process

GO:0006362 transcription elongation by RNA polymerase I Biological Process

GO:0006363 termination of RNA polymerase I transcription Biological Process

GO:0009303 rRNA transcription Biological Process

GO:0009561 megagametogenesis Biological Process

GO:0017126 nucleologenesis Biological Process

GO:0042254 ribosome biogenesis Biological Process

GO:0042790 nucleolar large rRNA transcription by RNA polymerase I Biological Process

GO:0001650 fibrillar center Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

KEGG gene cross-reference

ath:AT1G29940

hsa:84172

mmu:20017

pon:100171727

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.

Nucleus0.919

Rank 1 · LXL04_027617 · OH-1004

Cytoplasm0.072

Rank 2 · LXL04_027617 · OH-1004

Mitochondrion0.038

Rank 3 · LXL04_027617 · OH-1004

Cell membrane0.021

Rank 4 · LXL04_027617 · OH-1004

Endoplasmic reticulum0.012

Rank 5 · LXL04_027617 · 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.

PF04563.21RNA_pol_Rpb2_131-452 aa

PF04561.20RNA_pol_Rpb2_2241-418 aa

PF04565.22RNA_pol_Rpb2_3506-569 aa

PF06883.18RNA_pol_Rpa2_4623-680 aa

PF00562.34RNA_pol_Rpb2_6738-1104 aa

PF04560.26RNA_pol_Rpb2_71106-1214 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_027617	`PF04563.21`	RNA_pol_Rpb2_1	31	452	2.9e-30	106.0
LXL04_027617	`PF04561.20`	RNA_pol_Rpb2_2	241	418	1.2e-11	45.3
LXL04_027617	`PF04565.22`	RNA_pol_Rpb2_3	506	569	6.7e-27	94.2
LXL04_027617	`PF06883.18`	RNA_pol_Rpa2_4	623	680	1.1e-18	67.6
LXL04_027617	`PF00562.34`	RNA_pol_Rpb2_6	738	1104	4.6e-121	405.2
LXL04_027617	`PF04560.26`	RNA_pol_Rpb2_7	1106	1214	2.4e-21	76.7

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

Protein	Organism	Description	Identity	Database	Confidence
`F4I366`	Arabidopsis thaliana	DNA-directed RNA polymerase I subunit 2	64.959%	Swiss-Prot	strong database homology

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