LXL04_031670 | RubberDandelionOmics

Gene overview

LXL04_031670

Reference: OH-1004 Chr: Chr07 Coordinates: 9405542-9408865 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1806 bp · LXL04_031670|LXL04_031670|OH1004|cDNA

ATGTTGGGTTTTTGGCCAAGGGAAAGAAAGAAATTAAGAAAACGCCGTCTCCTTCCTGGCTTCCTGTCGATTTTGAAATTGAACCACTCCCAACTCACACCGTCGCAGTCCTCTGCTCCTCTCACCGTTTCTCTCGCAGTCTCGCACAGGAAAAAGCTTTTGCATAATCAGACCATGCAATTAGCTACCAATCCAATCCATCAAACTCACTACAACATTCTCAATGTGAAAGAAGATGCAACCCACGAAGAAATCCGTTC...

CDS

Download CDS FASTA

1806 bp · LXL04_031670|LXL04_031670|OH1004|CDS

ATGTTGGGTTTTTGGCCAAGGGAAAGAAAGAAATTAAGAAAACGCCGTCTCCTTCCTGGCTTCCTGTCGATTTTGAAATTGAACCACTCCCAACTCACACCGTCGCAGTCCTCTGCTCCTCTCACCGTTTCTCTCGCAGTCTCGCACAGGAAAAAGCTTTTGCATAATCAGACCATGCAATTAGCTACCAATCCAATCCATCAAACTCACTACAACATTCTCAATGTGAAAGAAGATGCAACCCACGAAGAAATCCGTTC...

Protein

Download Protein FASTA

601 aa · LXL04_031670|LXL04_031670|OH1004|PROTEIN

MLGFWPRERKKLRKRRLLPGFLSILKLNHSQLTPSQSSAPLTVSLAVSHRKKLLHNQTMQLATNPIHQTHYNILNVKEDATHEEIRSNYRSAILNSHPDKLQNTSPTTNLDPGSQFLDIQKAWEILGDVKSRAVYDRELRVSRQGEVMADEVELEDFAVEAGGDVVELFYQCRCGDYFCLDSLELREMGFEILMEEGEKILLRALDGVSVTSIVLPCGSCSLKIRLVINRDTSKEVETQRRGGDKETLEPTLSPLPEIST...

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_031670`
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_031670

Location Chr07:9405542-9408865 (-)

Description Similar to MTERF6: Transcription termination factor MTERF6, chloroplastic/mitochondrial

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g38160`	Transcription termination factor essential for chloroplast development.	No verified direct reference in this release
`At2g21710`	Transcription termination factor involved in processing of plastid transcripts (By similarity).	No verified direct reference in this release
`At4g14605`	Transcription termination factor required for processing and steady-state levels of plastid transcripts.	Arabidopsis MDA1, a nuclear-encoded protein, functions in chloroplast development and abiotic stress responses.2012 · DOI: 10.1371/journal.pone.0042924 mTERF5 Acts as a Transcriptional Pausing Factor to Positively Regulate Transcription of Chloroplast psbEFLJ.2019 · DOI: 10.1016/j.molp.2019.05.007

Rice

Reference gene ID	Possible function	Papers / DOI
`Os05g0404000`	Transcription termination factor required for processing and steady-state levels of plastid transcripts.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_031670 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006353 DNA-templated transcription termination Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0006970 response to osmotic stress Biological Process

GO:0008033 tRNA processing Biological Process

GO:0008380 RNA splicing Biological Process

GO:0009651 response to salt stress Biological Process

GO:0009658 chloroplast organization Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0042793 plastid transcription Biological Process

GO:0005739 mitochondrion Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0009507 chloroplast Cellular Component

KEGG gene cross-reference

ath:AT2G21710

ath:AT4G14605

ath:AT4G38160

dosa:Os05g0404000

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.

Plastid0.457

Rank 1 · LXL04_031670 · OH-1004

Mitochondrion0.268

Rank 2 · LXL04_031670 · OH-1004

Cytoplasm0.150

Rank 3 · LXL04_031670 · OH-1004

Nucleus0.143

Rank 4 · LXL04_031670 · OH-1004

Peroxisome0.041

Rank 5 · LXL04_031670 · 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.

PF00226.37DnaJ69-136 aa

PF05207.19Zn_ribbon_CSL150-227 aa

PF02536.20mTERF284-591 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_031670	`PF00226.37`	DnaJ	69	136	1.5e-15	57.8
LXL04_031670	`PF05207.19`	Zn_ribbon_CSL	150	227	2.4e-10	40.7
LXL04_031670	`PF02536.20`	mTERF	284	591	1.1e-56	192.8

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
`Q9SZL6`	Arabidopsis thaliana	Transcription termination factor MTERF6, chloroplastic/mitochondrial	63.125%	Swiss-Prot	moderate database homology
`F4IHL3`	Arabidopsis thaliana	Transcription termination factor MTERF2, chloroplastic	26.480%	Swiss-Prot	weak database homology
`F4JVI3`	Arabidopsis thaliana	Transcription termination factor MTERF5, chloroplastic	28.244%	Swiss-Prot	weak database homology
`Q6AUK6`	Oryza sativa subsp. japonica	Transcription termination factor MTERF4, chloroplastic	21.875%	Swiss-Prot	weak database homology

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