LXL04_022529 | RubberDandelionOmics

Gene overview

LXL04_022529

Reference: OH-1004 Chr: Chr05 Coordinates: 267762-276907 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3792 bp · LXL04_022529|LXL04_022529|OH1004|cDNA

ATGAACACGAACGAAGCCAGAACTTCCGGCGGCGGTAAATTTCACACCGTGCAGCCTCTTCGCGACTTAAAATCAAATTGGGAGGTAGATCTTGCCAATGATCTCCAAGAGTATTTGCTAAAGATATGCTCCGGTGAGATTACCGGCGGTGAAGATGATAGTCACCTATCTGTGAATTTCGCGGAAGCTGCGTTGCTGCTTCAAGGTTCAATTCAGGTGTACAGCCGGAAGGTTGAATATCTGTATTCCTTGGTTCTTCA...

CDS

Download CDS FASTA

3792 bp · LXL04_022529|LXL04_022529|OH1004|CDS

ATGAACACGAACGAAGCCAGAACTTCCGGCGGCGGTAAATTTCACACCGTGCAGCCTCTTCGCGACTTAAAATCAAATTGGGAGGTAGATCTTGCCAATGATCTCCAAGAGTATTTGCTAAAGATATGCTCCGGTGAGATTACCGGCGGTGAAGATGATAGTCACCTATCTGTGAATTTCGCGGAAGCTGCGTTGCTGCTTCAAGGTTCAATTCAGGTGTACAGCCGGAAGGTTGAATATCTGTATTCCTTGGTTCTTCA...

Protein

Download Protein FASTA

1263 aa · LXL04_022529|LXL04_022529|OH1004|PROTEIN

MNTNEARTSGGGKFHTVQPLRDLKSNWEVDLANDLQEYLLKICSGEITGGEDDSHLSVNFAEAALLLQGSIQVYSRKVEYLYSLVLHALEFISQQSQQHDKPDNTPNQEEETTPGVTPIESDDSFWVSDDIPIDAKNSLDRSKDSNTPLNSHVKPPANLVVLEGDCLDTSGDSGELESYLLATNDLYKDFILLDGCDAITVDEFLSGNDEINKNKNNSRGSSIGSKSRKTFMSPSRRSGGLFMSPNKRSAGKGVDPGQSQ...

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_022529`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_022529

Location Chr05:267762-276907 (+)

Description Similar to CAPH2: Condensin-2 complex subunit H2

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g16730`	Regulatory subunit of the condensin-2 complex, a complex that seems to provide chromosomes with an additional level of organization and rigidity and in establishing mitotic chromosome architecture (By similarity).	Condensin II alleviates DNA damage and is essential for tolerance of boron overload stress in Arabidopsis.2011 · DOI: 10.1105/tpc.111.086314
`At5g27870`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	No verified direct reference in this release
`At5g49180`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	No verified direct reference in this release
`At3g05610`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	No verified direct reference in this release
`At3g06830`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	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_022529 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006974 DNA damage response Biological Process

GO:0010032 meiotic chromosome condensation Biological Process

GO:0042545 cell wall modification Biological Process

GO:0045490 pectin catabolic process Biological Process

GO:0045739 positive regulation of DNA repair Biological Process

GO:0048358 mucilage pectin biosynthetic process Biological Process

GO:0051306 mitotic sister chromatid separation Biological Process

GO:0000793 condensed chromosome Cellular Component

GO:0000796 condensin complex Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0016020 membrane Cellular Component

KEGG gene cross-reference

ath:AT3G05610

ath:AT3G06830

ath:AT3G16730

ath:AT5G27870

ath:AT5G49180

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.

Nucleus0.663

Rank 1 · LXL04_022529 · OH-1004

Cytoplasm0.176

Rank 2 · LXL04_022529 · OH-1004

Endoplasmic reticulum0.106

Rank 3 · LXL04_022529 · OH-1004

Cell membrane0.103

Rank 4 · LXL04_022529 · OH-1004

Extracellular0.043

Rank 5 · LXL04_022529 · 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.

PF06278.17CNDH2_N14-132 aa

PF16869.11CNDH2_M154-295 aa

PF16858.12CNDH2_C453-584 aa

PF04043.21PMEI753-900 aa

PF01095.26Pectinesterase951-1246 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_022529	`PF06278.17`	CNDH2_N	14	132	7.5e-41	139.6
LXL04_022529	`PF16869.11`	CNDH2_M	154	295	2.9e-25	90.3
LXL04_022529	`PF16858.12`	CNDH2_C	453	584	5.9e-38	130.5
LXL04_022529	`PF04043.21`	PMEI	753	900	5.9e-28	98.7
LXL04_022529	`PF01095.26`	Pectinesterase	951	1246	1.6e-124	415.2

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
`Q9LUR0`	Arabidopsis thaliana	Condensin-2 complex subunit H2	50.815%	Swiss-Prot	weak database homology
`Q3E8Z8`	Arabidopsis thaliana	Putative pectinesterase/pectinesterase inhibitor 28	45.225%	Swiss-Prot	weak database homology
`Q9FJ21`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 58	45.357%	Swiss-Prot	weak database homology
`Q8GX86`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 21	43.268%	Swiss-Prot	weak database homology
`Q8GXA1`	Arabidopsis thaliana	Probable pectinesterase/pectinesterase inhibitor 23	41.637%	Swiss-Prot	weak database homology

JBrowse

View in Genome Browser

Gene Card