LXL04_039340 | RubberDandelionOmics

Gene overview

LXL04_039340

Reference: OH-1004 Chr: JAJTUU010000010.1 Coordinates: 3563354-3569726 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1902 bp · LXL04_039340|LXL04_039340|OH1004|cDNA

ATGGTAGCTGTTAAGGGATTAAGCACGTTTAAAAGTAGAGTTTCAGCAGAGCGGGAGACCAGGAAGAGTGTAGCAGGCGGAATCAAAAGCTTCAAGGTGTATACAGATAATGAAAAGGCTAGAGTTCAGAGCCGGGATCCTGTTGCTGCTgaagccaaAAAGAAGTCAATGCTAGTCAAAGCTGAAACCAGTCAAATTCAAGCCAACTGTCCAAAGGGTGTTTTTAACAAGTTGGAAAAGATTCATGGGAAAAACATCAT...

CDS

Download CDS FASTA

1902 bp · LXL04_039340|LXL04_039340|OH1004|CDS

ATGGTAGCTGTTAAGGGATTAAGCACGTTTAAAAGTAGAGTTTCAGCAGAGCGGGAGACCAGGAAGAGTGTAGCAGGCGGAATCAAAAGCTTCAAGGTGTATACAGATAATGAAAAGGCTAGAGTTCAGAGCCGGGATCCTGTTGCTGCTGAAGCCAAAAAGAAGTCAATGCTAGTCAAAGCTGAAACCAGTCAAATTCAAGCCAACTGTCCAAAGGGTGTTTTTAACAAGTTGGAAAAGATTCATGGGAAAAACATCAT...

Protein

Download Protein FASTA

633 aa · LXL04_039340|LXL04_039340|OH1004|PROTEIN

MVAVKGLSTFKSRVSAERETRKSVAGGIKSFKVYTDNEKARVQSRDPVAAEAKKKSMLVKAETSQIQANCPKGVFNKLEKIHGKNIISTKSTVARKVLGDISNSQGSLQKTEVFDGSKLGKSKLEKTAYSQRSSVGTKARNRSSLPGKLSLGIRVGSQCEAGSNRLTLSRVGTKDLKVFNGGNSRLRLQGKETVGCVKRESLRNYNPPPKRKTLPVIKHVEKTDTCDLKKGTLGLKIKEKHVFSVKPKLGTSLVPQVRNR...

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_039340`
TK1151 ID	TkA04G230840
OH-1004 ID	LXL04_039340
Relationship / confidence	Rbh High Identity Coverage Local Synteny Minor Chr Pair / Probable
Protein identity (%)	98.300
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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_039340

Location JAJTUU010000010.1:3563354-3569726 (-)

Description Similar to CYCB3-1: Putative cyclin-B3-1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g16330`	Putative cyclin-B3-1.	No verified direct reference in this release
`At5g06150`	May induce mitotic cell division.	No verified direct reference in this release
`At3g11520`	Cyclin-B1-3.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os05g0493500`	Cyclin-B1-5.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_039340 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000082 G1/S transition of mitotic cell cycle Biological Process

GO:0010332 response to gamma radiation Biological Process

GO:0051301 cell division Biological Process

GO:0000307 cyclin-dependent protein kinase holoenzyme complex Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0016538 cyclin-dependent protein serine/threonine kinase regulator activity Molecular Function

KEGG gene cross-reference

ath:AT1G16330

ath:AT3G11520

ath:AT5G06150

dosa:Os05g0493500

gmx:547920

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.

Nucleus0.833

Rank 1 · LXL04_039340 · OH-1004

Cytoplasm0.193

Rank 2 · LXL04_039340 · OH-1004

Mitochondrion0.030

Rank 3 · LXL04_039340 · OH-1004

Cell membrane0.024

Rank 4 · LXL04_039340 · OH-1004

Endoplasmic reticulum0.010

Rank 5 · LXL04_039340 · 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.

PF00134.29Cyclin_N382-508 aa

PF02984.25Cyclin_C511-626 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_039340	`PF00134.29`	Cyclin_N	382	508	6.7e-39	133.2
LXL04_039340	`PF02984.25`	Cyclin_C	511	626	2.6e-32	112.1

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
`Q9SA32`	Arabidopsis thaliana	Putative cyclin-B3-1	54.005%	Swiss-Prot	moderate database homology
`Q39067`	Arabidopsis thaliana	Cyclin-B1-2	40.729%	Swiss-Prot	moderate database homology
`Q39069`	Arabidopsis thaliana	Cyclin-B1-3	40.729%	Swiss-Prot	moderate database homology
`Q0DH40`	Oryza sativa subsp. japonica	Cyclin-B1-5	42.908%	Swiss-Prot	weak database homology

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