LXL04_036424 | RubberDandelionOmics

Gene overview

LXL04_036424

Reference: OH-1004 Chr: Chr08 Coordinates: 41742370-41744203 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1725 bp · LXL04_036424|LXL04_036424|OH1004|cDNA

ATGTCCAAAGCTTGTACACGTATACAAGAAAGTGATCATGAAGCCATTAACGGATTGCCACGCTACCGGCTTACGCTAGACAATCTTGGTAATGCATGCACGGTGGCTAGCTCATGTGCACCTGGACCATGCAAACCACCAAAAAGCTACGCTTGTCCTTTTGTGGCACGTAACTCGTTAGCATTTTTGAAATCCATTCGAAGTCAAATATCTGTAAACATGTACCAGAAACTTGATCCTCCCCCTCGAACACAAACCGG...

CDS

Download CDS FASTA

1725 bp · LXL04_036424|LXL04_036424|OH1004|CDS

ATGTCCAAAGCTTGTACACGTATACAAGAAAGTGATCATGAAGCCATTAACGGATTGCCACGCTACCGGCTTACGCTAGACAATCTTGGTAATGCATGCACGGTGGCTAGCTCATGTGCACCTGGACCATGCAAACCACCAAAAAGCTACGCTTGTCCTTTTGTGGCACGTAACTCGTTAGCATTTTTGAAATCCATTCGAAGTCAAATATCTGTAAACATGTACCAGAAACTTGATCCTCCCCCTCGAACACAAACCGG...

Protein

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574 aa · LXL04_036424|LXL04_036424|OH1004|PROTEIN

MSKACTRIQESDHEAINGLPRYRLTLDNLGNACTVASSCAPGPCKPPKSYACPFVARNSLAFLKSIRSQISVNMYQKLDPPPRTQTGEASFSCSGPEKVDYFDGVFNYLNKMLMEEDDLTNKPCMFIDSLALQATEKSFYDVLVYNPQETEPLEIYDTAVLCDDLNRLCLDKARSTSLMGFADNNVLRKRRKKMVEMVDFKELLMQCAEAMANGETSQSVQILKMIRIHSSPHGNSSNRMAHYFANAIEARLCGTGTDIY...

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_036424`
TK1151 ID	TkA04G047590
OH-1004 ID	LXL04_036424
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	89.700
Protein coverage (%)	TK1151 100.000 / OH-1004 65.854 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_036424

Location Chr08:41742370-41744203 (-)

Description Similar to SCL14: Scarecrow-like protein 14

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g07530`	Probable transcription factor involved in plant development.	No verified direct reference in this release
`At3g46600`	Probable transcription factor involved in plant development.	No verified direct reference in this release
`At2g37650`	Probable transcription factor involved in plant development.	No verified direct reference in this release
`At5g59450`	Probable transcription factor involved in plant development.	No verified direct reference in this release
`At2g29060`	Probable transcription factor involved in plant development.	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_036424 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0009410 response to xenobiotic stimulus Biological Process

GO:0045893 positive regulation of DNA-templated transcription Biological Process

GO:0080183 response to photooxidative stress Biological Process

GO:0005634 nucleus Cellular Component

GO:0005829 cytosol Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0043565 sequence-specific DNA binding Molecular Function

KEGG gene cross-reference

ath:AT1G07530

ath:AT2G29060

ath:AT2G37650

ath:AT3G46600

ath:AT5G59450

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.

Nucleus0.656

Rank 1 · LXL04_036424 · OH-1004

Cytoplasm0.385

Rank 2 · LXL04_036424 · OH-1004

Cell membrane0.050

Rank 3 · LXL04_036424 · OH-1004

Endoplasmic reticulum0.035

Rank 4 · LXL04_036424 · OH-1004

Plastid0.031

Rank 5 · LXL04_036424 · 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.

PF03514.21GRAS201-569 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_036424	`PF03514.21`	GRAS	201	569	1.3e-110	370.6

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
`Q9XE58`	Arabidopsis thaliana	Scarecrow-like protein 14	45.513%	Swiss-Prot	moderate database homology
`Q9SNB8`	Arabidopsis thaliana	Scarecrow-like protein 30	50.646%	Swiss-Prot	moderate database homology
`O80933`	Arabidopsis thaliana	Scarecrow-like protein 9	48.819%	Swiss-Prot	moderate database homology
`Q9LTI5`	Arabidopsis thaliana	Scarecrow-like protein 11	42.032%	Swiss-Prot	moderate database homology
`P0C883`	Arabidopsis thaliana	Scarecrow-like protein 33	47.769%	Swiss-Prot	moderate database homology

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