LXL04_018741 | RubberDandelionOmics

Gene overview

LXL04_018741

Reference: OH-1004 Chr: Chr04 Coordinates: 17472087-17479772 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3651 bp · LXL04_018741|LXL04_018741|OH1004|cDNA

ATGCCAGCAATGGATCTGCAAGGCAAAATTCATCGAATCGAACTCGAGAACTTCAAATCCTACAAAGGACACCAAGTTATTGGTCCTTTCAATGACTTCACCGCGATTATTGGTCCCAACGGTTCTGGGAAGTCTAACCTCATGGACGCTATAAGCTTCGTGCTCGGTGTTCGAACCGGTCAACTCAGGGGTGCACAGTTGAAGGACTTGATTTATGCTTTTGAAGACCGGGATAAGGAGCAACGAGGTCGTAAGGCTTT...

CDS

Download CDS FASTA

3651 bp · LXL04_018741|LXL04_018741|OH1004|CDS

ATGCCAGCAATGGATCTGCAAGGCAAAATTCATCGAATCGAACTCGAGAACTTCAAATCCTACAAAGGACACCAAGTTATTGGTCCTTTCAATGACTTCACCGCGATTATTGGTCCCAACGGTTCTGGGAAGTCTAACCTCATGGACGCTATAAGCTTCGTGCTCGGTGTTCGAACCGGTCAACTCAGGGGTGCACAGTTGAAGGACTTGATTTATGCTTTTGAAGACCGGGATAAGGAGCAACGAGGTCGTAAGGCTTT...

Protein

Download Protein FASTA

1216 aa · LXL04_018741|LXL04_018741|OH1004|PROTEIN

MPAMDLQGKIHRIELENFKSYKGHQVIGPFNDFTAIIGPNGSGKSNLMDAISFVLGVRTGQLRGAQLKDLIYAFEDRDKEQRGRKAFVKLVYRLGNGTELLFTRTITSAGGSEYRLDDRVVNWDDYNAKLKSLGILVKARNFLVFQGDVESVASKNPRELTVLIEQISGSDEDKRLYEDLEEKKGAAEEKSTLAYQKKRTIVMERKQKKEQKEEAEKHMRLQEELRSLKMEHFLWQLFNIQNDVEKANEEIEDEQSSLQE...

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_018741`
TK1151 ID	TkA08G080460
OH-1004 ID	LXL04_018741
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	98.600
Protein coverage (%)	TK1151 95.484 / OH-1004 48.684 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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_018741

Location Chr04:17472087-17479772 (+)

Description Similar to SMC1: Structural maintenance of chromosomes protein 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g54670`	Central component of cohesin, a complex required for chromosome cohesion during the cell cycle.	Condensin and cohesin knockouts in Arabidopsis exhibit a titan seed phenotype.2002 · DOI: 10.1046/j.1365-313x.2002.01224.x Cohesin gene defects may impair sister chromatid alignment and genome stability in Arabidopsis thaliana.2009 · DOI: 10.1007/s00412-009-0220-x

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_018741 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000070 mitotic sister chromatid segregation Biological Process

GO:0006281 DNA repair Biological Process

GO:0007059 chromosome segregation Biological Process

GO:0007062 sister chromatid cohesion Biological Process

GO:0007064 mitotic sister chromatid cohesion Biological Process

GO:0009314 response to radiation Biological Process

GO:0019827 stem cell population maintenance Biological Process

GO:0034087 establishment of mitotic sister chromatid cohesion Biological Process

GO:0051301 cell division Biological Process

GO:0051321 meiotic cell cycle Biological Process

GO:0072423 response to DNA damage checkpoint signaling Biological Process

GO:0090307 mitotic spindle assembly Biological Process

KEGG gene cross-reference

ath:AT3G54670

bta:282370

hsa:8243

mmu:24061

rno:63996

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

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.

Nucleus0.912

Rank 1 · LXL04_018741 · OH-1004

Cytoplasm0.147

Rank 2 · LXL04_018741 · OH-1004

Cell membrane0.020

Rank 3 · LXL04_018741 · OH-1004

Mitochondrion0.019

Rank 4 · LXL04_018741 · OH-1004

Extracellular0.011

Rank 5 · LXL04_018741 · 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.

PF13175.13AAA_159-361 aa

PF02463.26SMC_N10-1197 aa

PF13555.13AAA_2911-55 aa

PF13476.13AAA_2312-301 aa

PF13304.13AAA_2133-70 aa

PF06470.19SMC_hinge516-630 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_018741	`PF13175.13`	AAA_15	9	361	5.6e-12	46.6
LXL04_018741	`PF02463.26`	SMC_N	10	1197	1.8e-39	136.2
LXL04_018741	`PF13555.13`	AAA_29	11	55	9.1e-09	35.7
LXL04_018741	`PF13476.13`	AAA_23	12	301	3.8e-06	28.4
LXL04_018741	`PF13304.13`	AAA_21	33	70	1.4e-09	39.1
LXL04_018741	`PF06470.19`	SMC_hinge	516	630	6.5e-23	82.0

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
`Q6Q1P4`	Arabidopsis thaliana	Structural maintenance of chromosomes protein 1	64.286%	Swiss-Prot	strong database homology

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