LXL04_026396 | RubberDandelionOmics

Gene overview

LXL04_026396

Reference: OH-1004 Chr: Chr05 Coordinates: 125770898-125774657 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2205 bp · LXL04_026396|LXL04_026396|OH1004|cDNA

ATGACCGGCGCGGTGGACATGTCCACAGTTCAGTCACTATCGCCGCAGGAAATCAACTCTTACCGCATCTCCGCCGTCACTAGGCGATTACTCGATCACGTTCGTGGTGACAAAAATACGACGGACACAGAGTTCTTCAACCTCTGCCTCTCTCTTGCCAGGGGTATCGACTATGCTGTTGCCAACAGTGATATCGATGGACGTGCTTCAGATTTACCCTATCTGATAAAACAGATATGTCAGCTGAAAAACGAACCACA...

CDS

Download CDS FASTA

2205 bp · LXL04_026396|LXL04_026396|OH1004|CDS

ATGACCGGCGCGGTGGACATGTCCACAGTTCAGTCACTATCGCCGCAGGAAATCAACTCTTACCGCATCTCCGCCGTCACTAGGCGATTACTCGATCACGTTCGTGGTGACAAAAATACGACGGACACAGAGTTCTTCAACCTCTGCCTCTCTCTTGCCAGGGGTATCGACTATGCTGTTGCCAACAGTGATATCGATGGACGTGCTTCAGATTTACCCTATCTGATAAAACAGATATGTCAGCTGAAAAACGAACCACA...

Protein

Download Protein FASTA

734 aa · LXL04_026396|LXL04_026396|OH1004|PROTEIN

MTGAVDMSTVQSLSPQEINSYRISAVTRRLLDHVRGDKNTTDTEFFNLCLSLARGIDYAVANSDIDGRASDLPYLIKQICQLKNEPQLLAAIMVLMISVKSACSSGWFDEKEKEELFILSDEMQSSFCSVNVKDMNSNMKNKETTFHPTISQIMSRYYPRMNMGHILCLVEAMPGYDSYVTDLHISKTARTSTDDKIYLFVAQIDNIDTSACIISPQHVNFLLNGEGVERRTCIFRDPGPQVPTPVTHMLKYGSNLLQVV...

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_026396`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_026396

Location Chr05:125770898-125774657 (+)

Description Similar to PIAL2: E4 SUMO-protein ligase PIAL2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g41580`	Together with MOM1 and PIAL1, regulates transcriptional gene silencing (TGS) independently of changes in DNA methylation.	Arabidopsis PIAL1 and 2 promote SUMO chain formation as E4-type SUMO ligases and are involved in stress responses and sulfur metabolism.2014 · DOI: 10.1105/tpc.114.131300 The SUMO E3 Ligase-Like Proteins PIAL1 and PIAL2 Interact with MOM1 and Form a Novel Complex Required for Transcriptional Silencing.2016 · DOI: 10.1105/tpc.15.00997
`At1g08910`	Together with MOM1 and PIAL2, regulates transcriptional gene silencing (TGS) independently of changes in DNA methylation.	Arabidopsis PIAL1 and 2 promote SUMO chain formation as E4-type SUMO ligases and are involved in stress responses and sulfur metabolism.2014 · DOI: 10.1105/tpc.114.131300 The SUMO E3 Ligase-Like Proteins PIAL1 and PIAL2 Interact with MOM1 and Form a Novel Complex Required for Transcriptional Silencing.2016 · DOI: 10.1105/tpc.15.00997

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_026396 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0006357 regulation of transcription by RNA polymerase II Biological Process

GO:0007131 reciprocal meiotic recombination Biological Process

GO:0016925 protein sumoylation Biological Process

GO:0030999 linear element assembly Biological Process

GO:0031297 replication fork processing Biological Process

GO:0032480 negative regulation of type I interferon production Biological Process

GO:0036299 non-recombinational interstrand cross-link repair Biological Process

GO:0045944 positive regulation of transcription by RNA polymerase II Biological Process

GO:0060339 negative regulation of type I interferon-mediated signaling pathway Biological Process

GO:0060966 regulation of gene silencing by regulatory ncRNA Biological Process

GO:0072766 centromere clustering at the mitotic interphase nuclear envelope Biological Process

KEGG gene cross-reference

ath:AT1G08910

ath:AT5G41580

dre:406712

mmu:52915

spo:2541580

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.

Nucleus0.683

Rank 1 · LXL04_026396 · OH-1004

Cytoplasm0.385

Rank 2 · LXL04_026396 · OH-1004

Cell membrane0.038

Rank 3 · LXL04_026396 · OH-1004

Endoplasmic reticulum0.028

Rank 4 · LXL04_026396 · OH-1004

Mitochondrion0.026

Rank 5 · LXL04_026396 · 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.

PF26716.1PIAL1_N16-175 aa

PF11789.15zf-Nse304-356 aa

PF02891.27zf-MIZ309-357 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_026396	`PF26716.1`	PIAL1_N	16	175	6.7e-62	208.6
LXL04_026396	`PF11789.15`	zf-Nse	304	356	2.2e-06	28.1
LXL04_026396	`PF02891.27`	zf-MIZ	309	357	9.7e-21	74.0

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
`F4JYG0`	Arabidopsis thaliana	E4 SUMO-protein ligase PIAL2	45.395%	Swiss-Prot	moderate database homology
`A0A0A7EPL0`	Arabidopsis thaliana	E4 SUMO-protein ligase PIAL1	47.709%	Swiss-Prot	moderate database homology

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