LXL04_012927 | RubberDandelionOmics

Gene overview

LXL04_012927

Reference: OH-1004 Chr: Chr03 Coordinates: 20971440-20984169 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

4692 bp · LXL04_012927|LXL04_012927|OH1004|cDNA

ATGATTTTAGTTCGATCACTGCTATGTTGCTTTGCCACAAGTCGAAGAACTTGCCATCTTGTTCAATTTTCTAAAATAGATCTGTGTTTTAGAACAATGGCATCTCACATTGTTGGTTATCCCCGTATGGGCCCCAAGAGAGAGCTGAAATTCGCTCTTGAATCCTTCTGGGATGGCAAGAGCAGTGCTGAGGATTTGCAGAAGGTGTCTGCTGATCTCAGATCATCCATCTGGAAACAGATGTCTGATGCTGGCATCAA...

CDS

Download CDS FASTA

4692 bp · LXL04_012927|LXL04_012927|OH1004|CDS

ATGATTTTAGTTCGATCACTGCTATGTTGCTTTGCCACAAGTCGAAGAACTTGCCATCTTGTTCAATTTTCTAAAATAGATCTGTGTTTTAGAACAATGGCATCTCACATTGTTGGTTATCCCCGTATGGGCCCCAAGAGAGAGCTGAAATTCGCTCTTGAATCCTTCTGGGATGGCAAGAGCAGTGCTGAGGATTTGCAGAAGGTGTCTGCTGATCTCAGATCATCCATCTGGAAACAGATGTCTGATGCTGGCATCAA...

Protein

Download Protein FASTA

1563 aa · LXL04_012927|LXL04_012927|OH1004|PROTEIN

MILVRSLLCCFATSRRTCHLVQFSKIDLCFRTMASHIVGYPRMGPKRELKFALESFWDGKSSAEDLQKVSADLRSSIWKQMSDAGIKYIPSNTFSYYDQVLDTTAMLGAVPSRYNWNGGEIGFDTYFSMARGNASVPAMEMTKWFDTNYHFIVPELGPDVQFSYASHKAVTEYKEAKALGVDTVPVFVGPVSYLLLSKPAKGVEKTFDLLSLLDKILPIYKEVIAELKEAGATTIQFDEATLVKDLESYQLEAFTKAYSE...

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_012927`
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_012927

Location Chr03:20971440-20984169 (+)

Description Similar to METE: 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g17920`	Catalyzes the transfer of a methyl group from 5-methyltetrahydrofolate to homocysteine resulting in methionine formation.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os12g0624000`	Catalyzes the transfer of a methyl group from 5-methyltetrahydrofolate to homocysteine resulting in methionine formation.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_012927 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006346 DNA methylation-dependent constitutive heterochromatin formation Biological Process

GO:0009086 methionine biosynthetic process Biological Process

GO:0010043 response to zinc ion Biological Process

GO:0032259 methylation Biological Process

GO:0071266 'de novo' L-methionine biosynthetic process Biological Process

GO:0000325 plant-type vacuole Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005777 peroxisome Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0009507 chloroplast Cellular Component

KEGG gene cross-reference

ag:CAA58474

ath:AT5G17920

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.

Cytoplasm0.799

Rank 1 · LXL04_012927 · OH-1004

Nucleus0.162

Rank 2 · LXL04_012927 · OH-1004

Mitochondrion0.075

Rank 3 · LXL04_012927 · OH-1004

Endoplasmic reticulum0.069

Rank 4 · LXL04_012927 · OH-1004

Cell membrane0.060

Rank 5 · LXL04_012927 · 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.

PF08267.19Meth_synt_135-348 aa

PF01717.25Meth_synt_2464-787 aa

PF08267.19Meth_synt_1582-722 aa

PF08267.19Meth_synt_1801-1114 aa

PF01717.25Meth_synt_21230-1553 aa

PF08267.19Meth_synt_11348-1488 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_012927	`PF08267.19`	Meth_synt_1	35	348	1.3e-250	830.4
LXL04_012927	`PF01717.25`	Meth_synt_2	464	787		1083.4
LXL04_012927	`PF08267.19`	Meth_synt_1	582	722	1.3e-250	830.4
LXL04_012927	`PF08267.19`	Meth_synt_1	801	1114	1.3e-250	830.4
LXL04_012927	`PF01717.25`	Meth_synt_2	1230	1553		1083.4
LXL04_012927	`PF08267.19`	Meth_synt_1	1348	1488	1.3e-250	830.4

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
`O50008`	Arabidopsis thaliana	5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase 1	87.843%	Swiss-Prot	weak database homology
`Q2QLY4`	Oryza sativa subsp. japonica	5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase 2	87.598%	Swiss-Prot	weak database homology

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