LXL04_014749 | RubberDandelionOmics

Gene overview

LXL04_014749

Reference: OH-1004 Chr: Chr03 Coordinates: 56270724-56271476 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

423 bp · LXL04_014749|LXL04_014749|OH1004|cDNA

ATGTCTGGAGCTGCAGAAGAGGAAGAGAATGCTGCAGACCTCAAAATAGGAGATGAGTTTTTGAAGGCGAAATGTCTAATGAACTGTGAAGTCTCGTTGATTCTTGAACACAAATATGAACAACTTCAACAGATGTCCGAAGATCCATTGAATCAAGTTTCTCAGGTGTTTGAGAAGTCACTGCAATATGTGAAGCGTTTCAGTCGCTACAAGAATCCGGATGCTGTTAGACAAGTCAGAGAattACTGAGTAGATACCA...

CDS

Download CDS FASTA

423 bp · LXL04_014749|LXL04_014749|OH1004|CDS

ATGTCTGGAGCTGCAGAAGAGGAAGAGAATGCTGCAGACCTCAAAATAGGAGATGAGTTTTTGAAGGCGAAATGTCTAATGAACTGTGAAGTCTCGTTGATTCTTGAACACAAATATGAACAACTTCAACAGATGTCCGAAGATCCATTGAATCAAGTTTCTCAGGTGTTTGAGAAGTCACTGCAATATGTGAAGCGTTTCAGTCGCTACAAGAATCCGGATGCTGTTAGACAAGTCAGAGAATTACTGAGTAGATACCA...

Protein

Download Protein FASTA

140 aa · LXL04_014749|LXL04_014749|OH1004|PROTEIN

MSGAAEEEENAADLKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPLNQVSQVFEKSLQYVKRFSRYKNPDAVRQVRELLSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKSRGRGHDDEAIEKMLNDMSLIKKFE

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_014749`
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_014749

Location Chr03:56270724-56271476 (-)

Description Similar to NRPB4: DNA-directed RNA polymerase II subunit 4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g09920`	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

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Functional annotation source: OH1004 · LXL04_014749 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006366 transcription by RNA polymerase II Biological Process

GO:0006367 transcription initiation at RNA polymerase II promoter Biological Process

GO:0006368 transcription elongation by RNA polymerase II Biological Process

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0005665 RNA polymerase II, core complex Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

GO:0016607 nuclear speck Cellular Component

GO:0000166 nucleotide binding Molecular Function

GO:0003899 DNA-directed RNA polymerase activity Molecular Function

GO:0031369 translation initiation factor binding Molecular Function

KEGG gene cross-reference

ath:AT5G09920

bta:617422

ddi:DDB_G0282739

hsa:5433

mmu:69241

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.

Nucleus0.844

Rank 1 · LXL04_014749 · OH-1004

Cytoplasm0.255

Rank 2 · LXL04_014749 · OH-1004

Mitochondrion0.023

Rank 3 · LXL04_014749 · OH-1004

Cell membrane0.023

Rank 4 · LXL04_014749 · OH-1004

Endoplasmic reticulum0.019

Rank 5 · LXL04_014749 · 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.

PF03874.22RNA_pol_Rpb425-134 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_014749	`PF03874.22`	RNA_pol_Rpb4	25	134	1.4e-27	96.9

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.

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Protein	Organism	Description	Identity	Database	Confidence
`O48890`	Arabidopsis thaliana	DNA-directed RNA polymerase II subunit 4	87.857%	Swiss-Prot	strong database homology

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