LXL04_021586 | RubberDandelionOmics

Gene overview

LXL04_021586

Reference: OH-1004 Chr: Chr04 Coordinates: 132852908-132855530 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1218 bp · LXL04_021586|LXL04_021586|OH1004|cDNA

ATGAATTGGAACCCTAATTTAATCCTCTACACTTGCATCGCAAAAGACACAACAGTTCTAGCTGAATTCAATTCAAAAGATGAACATCTTAGCGATTTAGCTAAGAAGTGCCTGGAGAAGACGCCGCCCTTCCATTCCATCTTCTCTCACACCGTTCATGGCAAAACCTACATGTTTTTCATCCTTAATCgttttatatattttggaaTCTTCGATGAATCGCTCGAGAAACCTCAGTGTTTGTTGTTTCTGAAAAGCGT...

CDS

Download CDS FASTA

1218 bp · LXL04_021586|LXL04_021586|OH1004|CDS

ATGAATTGGAACCCTAATTTAATCCTCTACACTTGCATCGCAAAAGACACAACAGTTCTAGCTGAATTCAATTCAAAAGATGAACATCTTAGCGATTTAGCTAAGAAGTGCCTGGAGAAGACGCCGCCCTTCCATTCCATCTTCTCTCACACCGTTCATGGCAAAACCTACATGTTTTTCATCCTTAATCGTTTTATATATTTTGGAATCTTCGATGAATCGCTCGAGAAACCTCAGTGTTTGTTGTTTCTGAAAAGCGT...

Protein

Download Protein FASTA

405 aa · LXL04_021586|LXL04_021586|OH1004|PROTEIN

MNWNPNLILYTCIAKDTTVLAEFNSKDEHLSDLAKKCLEKTPPFHSIFSHTVHGKTYMFFILNRFIYFGIFDESLEKPQCLLFLKSVKDAFTNMIDNRRTIKQRLYPPIPHCFQREFTPVFHHLLSSNPSSDSSSDSTHDHKEENLEESNSTPPSLLLFSQRFNSPESGGGFTPPPCGGGATVPFQWEVAPGKPRHTTVATASDPPSRGGRSLDLPPRMFVPSPTSVLDGPYSLCSPKKVQSKWKKKMMMMMPLRKMIMS...

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_021586`
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_021586

Location Chr04:132852908-132855530 (-)

Description Similar to PHYL2.2: Phytolongin Phyl2.2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g52990`	Non-SNARE longin protein involved in membrane-trafficking machinery.	No verified direct reference in this release
`At4g27840`	Non-SNARE longin protein involved in membrane-trafficking machinery.	No verified direct reference in this release
`At4g10170`	Non-SNARE longin protein involved in membrane-trafficking machinery.	No verified direct reference in this release
`At1g33475`	Non-SNARE longin protein involved in membrane-trafficking machinery.	No verified direct reference in this release
`At3g54300`	Involved in the targeting and/or fusion of transport vesicles to their target membrane.	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_021586 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006623 protein targeting to vacuole Biological Process

GO:0007033 vacuole organization Biological Process

GO:0015031 protein transport Biological Process

GO:0016192 vesicle-mediated transport Biological Process

GO:0005634 nucleus Cellular Component

GO:0005768 endosome Cellular Component

GO:0016020 membrane Cellular Component

GO:0031201 SNARE complex Cellular Component

GO:0031901 early endosome membrane Cellular Component

GO:0033263 CORVET complex Cellular Component

KEGG gene cross-reference

ath:AT1G33475

ath:AT3G54300

ath:AT4G10170

ath:AT4G27840

ath:AT5G52990

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.

Cell membrane0.421

Rank 1 · LXL04_021586 · OH-1004

Nucleus0.365

Rank 2 · LXL04_021586 · OH-1004

Cytoplasm0.346

Rank 3 · LXL04_021586 · OH-1004

Endoplasmic reticulum0.067

Rank 4 · LXL04_021586 · OH-1004

Mitochondrion0.037

Rank 5 · LXL04_021586 · 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.

PF13774.14Longin20-104 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_021586	`PF13774.14`	Longin	20	104	2.4e-06	28.3

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
`Q9LVV3`	Arabidopsis thaliana	Phytolongin Phyl2.2	45.968%	Swiss-Prot	weak database homology
`Q9STP2`	Arabidopsis thaliana	Phytolongin Phyl2.1	40.984%	Swiss-Prot	weak database homology
`Q9SN26`	Arabidopsis thaliana	Phytolongin Phyl1.1	32.716%	Swiss-Prot	weak database homology
`Q84WF5`	Arabidopsis thaliana	Phytolongin Phyl1.2	35.227%	Swiss-Prot	weak database homology
`Q9M376`	Arabidopsis thaliana	Vesicle-associated membrane protein 727	33.333%	Swiss-Prot	weak database homology

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