LXL04_027987 | RubberDandelionOmics

Gene overview

LXL04_027987

Reference: OH-1004 Chr: Chr06 Coordinates: 28200443-28204680 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1039 bp · LXL04_027987|LXL04_027987|OH1004|cDNA

ACATGCACCCTGCTATACTCTCAATATATAAAATTCAATATATGTGGGTATATTACTCGAACACAGTCTCTCTCTCTTTAGACATTCAACCTTTTATGAATTTCAAAACAAAGTcttagagagagaaagtagacAAATTACAGTAATGGGCGATGAAAAATCTCCAAGTACCAGAGATCGGGAGCTGCTGATACCTGTCGCCAATACCGTTGACGATGATGATGACGCATCTTCAAAACCCTCACCTTCTTCCAATTCAT...

CDS

Download CDS FASTA

894 bp · LXL04_027987|LXL04_027987|OH1004|CDS

ATGGGCGATGAAAAATCTCCAAGTACCAGAGATCGGGAGCTGCTGATACCTGTCGCCAATACCGTTGACGATGATGATGACGCATCTTCAAAACCCTCACCTTCTTCCAATTCATCGTCTCATCACGCCGGCCGCGAGACTTTCTCCAAAGTAGTCAGAAGTTGGGCTTCCAAAAAGTTCATGACCGGATGTGTGATTCTATTGCCAATAGCCATCACTTTCTACATAACATGGTGGTTTATACATTTTGTGGACGGATT...

Protein

Download Protein FASTA

297 aa · LXL04_027987|LXL04_027987|OH1004|PROTEIN

MGDEKSPSTRDRELLIPVANTVDDDDDASSKPSPSSNSSSHHAGRETFSKVVRSWASKKFMTGCVILLPIAITFYITWWFIHFVDGFFSPIYVQLGIDIFGLGFITSIMFIFLVGVFMSSWLGASVLSLGEWFIKRMPFVRHIYNASKQISAAISPDQNTQAFKEVAIIRHPRIGEYAFGFITSSVTLQLYSGEEELYSVYVPTNHLYIGDIFLVNSKDVIRPNLSVREGIVCGPHLQASAAEEVDQTSAVCKKKTKLWY...

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_027987`
TK1151 ID	TkA07G110940
OH-1004 ID	LXL04_027987
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	98.700
Protein coverage (%)	TK1151 74.277 / OH-1004 77.778 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_027987

Location Chr06:28200443-28204680 (+)

Description Similar to COV1: Protein CONTINUOUS VASCULAR RING 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g20120`	Involved in the regulation of vascular patterning in the stem, probably by negatively regulating the differentiation of vascular tissue.	Isolation of COV1, a gene involved in the regulation of vascular patterning in the stem of Arabidopsis.2003 · DOI: 10.1242/dev.00441
`At2g20130`	Protein LIKE COV 1.	No verified direct reference in this release
`At2g18460`	Protein LIKE COV 3.	No verified direct reference in this release
`At1g43130`	Protein LIKE COV 2.	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_027987 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0010222 stem vascular tissue pattern formation Biological Process

GO:0000137 Golgi cis cisterna Cellular Component

GO:0005576 extracellular region Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005768 endosome Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005802 trans-Golgi network Cellular Component

GO:0016020 membrane Cellular Component

KEGG gene cross-reference

ath:AT1G43130

ath:AT2G18460

ath:AT2G20120

ath:AT2G20130

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.

Endoplasmic reticulum0.435

Rank 1 · LXL04_027987 · OH-1004

Golgi apparatus0.155

Rank 2 · LXL04_027987 · OH-1004

Plastid0.115

Rank 3 · LXL04_027987 · OH-1004

Cytoplasm0.097

Rank 4 · LXL04_027987 · OH-1004

Nucleus0.097

Rank 5 · LXL04_027987 · 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.

PF04367.19DUF502106-206 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_027987	`PF04367.19`	DUF502	106	206	1.5e-27	96.3

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.

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Protein	Organism	Description	Identity	Database	Confidence
`F4IUE7`	Arabidopsis thaliana	Protein CONTINUOUS VASCULAR RING 1	73.507%	Swiss-Prot	strong database homology
`Q8VY49`	Arabidopsis thaliana	Protein LIKE COV 1	82.960%	Swiss-Prot	strong database homology
`F4IQJ6`	Arabidopsis thaliana	Protein LIKE COV 3	72.768%	Swiss-Prot	strong database homology
`Q9C8C1`	Arabidopsis thaliana	Protein LIKE COV 2	72.727%	Swiss-Prot	strong database homology

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