LXL04_039073 | RubberDandelionOmics

Gene overview

LXL04_039073

Reference: OH-1004 Chr: Chr09 Coordinates: 58587378-58591693 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1550 bp · LXL04_039073|LXL04_039073|OH1004|cDNA

tattttactGCAGCAACTATGACTGAACAAGAAGCTCTCATCGATGAAAACTTCCCTTTATTTTCTcaaaaaccaaaaaccaaatCCTCCAAACCTGTCACCACCCCTACCCCTACCCCTACCCACAACCAATTAGTGAAAGACACGTCATCCACCACCCATCTCAGTTTCACTGACCTAAATCTTTCAGATTGGGCTCTTCAAACCTGCAAAGAACTGGGCATGAAAAAACCCACCCCTGTTCAACAACACTGCATCCC...

CDS

Download CDS FASTA

1494 bp · LXL04_039073|LXL04_039073|OH1004|CDS

ATGACTGAACAAGAAGCTCTCATCGATGAAAACTTCCCTTTATTTTCTCAAAAACCAAAAACCAAATCCTCCAAACCTGTCACCACCCCTACCCCTACCCCTACCCACAACCAATTAGTGAAAGACACGTCATCCACCACCCATCTCAGTTTCACTGACCTAAATCTTTCAGATTGGGCTCTTCAAACCTGCAAAGAACTGGGCATGAAAAAACCCACCCCTGTTCAACAACACTGCATCCCCCGCATCCTATCTGGCGA...

Protein

Download Protein FASTA

497 aa · LXL04_039073|LXL04_039073|OH1004|PROTEIN

MTEQEALIDENFPLFSQKPKTKSSKPVTTPTPTPTHNQLVKDTSSTTHLSFTDLNLSDWALQTCKELGMKKPTPVQQHCIPRILSGEDVLGIAQTGSGKTAAFALPILHRLAEDPYGVFCLVVTPTRELAYQLAEQFRALGSCLNLRCAVIVGGMDMITQSHTLMQRPHVVIATPGRIKVLIEQNPDIPPVFSNTKFLVLDEADRVLDTGFEDELRVVFNCLPKKRQTLLFSATMTSNLQSLLEVSANKAYFYEAYQGFQ...

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_039073`
TK1151 ID	TkA04G501870
OH-1004 ID	LXL04_039073
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	97.200
Protein coverage (%)	TK1151 78.247 / OH-1004 99.799 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_039073

Location Chr09:58587378-58591693 (+)

Description No functional description available

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g16280`	DEAD-box ATP-dependent RNA helicase 36.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os07g0633500`	DEAD-box ATP-dependent RNA helicase 36.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_039073 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006364 rRNA processing Biological Process

GO:0009553 embryo sac development Biological Process

GO:0009561 megagametogenesis Biological Process

GO:0009791 post-embryonic development Biological Process

GO:0030307 positive regulation of cell growth Biological Process

GO:0044357 regulation of rRNA stability Biological Process

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0090406 pollen tube Cellular Component

GO:0003676 nucleic acid binding Molecular Function

GO:0003723 RNA binding Molecular Function

KEGG gene cross-reference

ath:AT1G16280

ddi:DDB_G0270396

dosa:Os07g0633500

hsa:54555

mmu:234374

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.

Nucleus0.655

Rank 1 · LXL04_039073 · OH-1004

Cytoplasm0.378

Rank 2 · LXL04_039073 · OH-1004

Mitochondrion0.070

Rank 3 · LXL04_039073 · OH-1004

Endoplasmic reticulum0.032

Rank 4 · LXL04_039073 · OH-1004

Cell membrane0.029

Rank 5 · LXL04_039073 · 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.

PF04851.22ResIII71-235 aa

PF00270.36DEAD73-241 aa

PF00271.38Helicase_C289-388 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_039073	`PF04851.22`	ResIII	71	235	2.9e-07	31.2
LXL04_039073	`PF00270.36`	DEAD	73	241	9.7e-48	162.8
LXL04_039073	`PF00271.38`	Helicase_C	289	388	7.4e-28	97.7

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9SA27`	Arabidopsis thaliana	DEAD-box ATP-dependent RNA helicase 36	69.264%	Swiss-Prot	strong database homology
`Q8L4E9`	Oryza sativa subsp. japonica	DEAD-box ATP-dependent RNA helicase 36	62.651%	Swiss-Prot	strong database homology

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