LXL04_038705 | RubberDandelionOmics

Gene overview

LXL04_038705

Reference: OH-1004 Chr: Chr09 Coordinates: 48410985-48412992 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1335 bp · LXL04_038705|LXL04_038705|OH1004|cDNA

atgtcGTTTCGTAGCATAGTCCGCGACGTGAGGGACGGTTTCGGAAGTTTATCAAGGCGAAGTTTTGACGTTCGGCTTTCAGGCCTTCACCATCACCATCACACCAGAGGAAAATCACAAGGCTCAATTAATGATTTAagcgataataataataataataataatcacGCCTCCCTAATTGTCCAAAATAGCAGATGGGCGAATTTACCCCCCGAACTTCTTTTCGATGTAATTAAACGGTTAGAAGAAAGCGAAAGCAC...

CDS

Download CDS FASTA

1335 bp · LXL04_038705|LXL04_038705|OH1004|CDS

ATGTCGTTTCGTAGCATAGTCCGCGACGTGAGGGACGGTTTCGGAAGTTTATCAAGGCGAAGTTTTGACGTTCGGCTTTCAGGCCTTCACCATCACCATCACACCAGAGGAAAATCACAAGGCTCAATTAATGATTTAAGCGATAATAATAATAATAATAATAATCACGCCTCCCTAATTGTCCAAAATAGCAGATGGGCGAATTTACCCCCCGAACTTCTTTTCGATGTAATTAAACGGTTAGAAGAAAGCGAAAGCAC...

Protein

Download Protein FASTA

444 aa · LXL04_038705|LXL04_038705|OH1004|PROTEIN

MSFRSIVRDVRDGFGSLSRRSFDVRLSGLHHHHHTRGKSQGSINDLSDNNNNNNNHASLIVQNSRWANLPPELLFDVIKRLEESESTWPARKHVVACAAVCRSWRSMCKEIVRTPESCGKLTFPVSLKQPGPRDVTIQCFIKRDKSNLTYHLYLCLSPAALLVENGKFLLSAKRTRRTTCTEYVISMDAENISRSSNTYIGKLRSNFLGTKFLIYDTQPPHSGANIPAPGRSSRRFYSKKVSPKMPSGSYNIAHITYELN...

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_038705`
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_038705

Location Chr09:48410985-48412992 (+)

Description Similar to TULP8: Tubby-like F-box protein 8

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g25280`	Component of SCF(ASK-cullin-F-box) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins.	No verified direct reference in this release
`At1g76900`	Tubby-like F-box protein 1.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os05g0437900`	Tubby-like F-box protein 8.	No verified direct reference in this release
`Os12g0163400`	Tubby-like F-box protein 14.	No verified direct reference in this release
`Os04g0687900`	Tubby-like F-box protein 7.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_038705 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0009620 response to fungus Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0005634 nucleus Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009536 plastid Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

KEGG gene cross-reference

ath:AT1G25280

ath:AT1G76900

dosa:Os04g0687900

dosa:Os05g0437900

dosa:Os12g0163400

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.

Cytoplasm0.454

Rank 1 · LXL04_038705 · OH-1004

Cell membrane0.385

Rank 2 · LXL04_038705 · OH-1004

Nucleus0.378

Rank 3 · LXL04_038705 · OH-1004

Endoplasmic reticulum0.052

Rank 4 · LXL04_038705 · OH-1004

Golgi apparatus0.041

Rank 5 · LXL04_038705 · 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.

PF12937.13F-box-like66-109 aa

PF01167.25Tub127-439 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_038705	`PF12937.13`	F-box-like	66	109	2.6e-07	31.0
LXL04_038705	`PF01167.25`	Tub	127	439	1.4e-109	366.4

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
`Q9FRH7`	Arabidopsis thaliana	Tubby-like F-box protein 10	71.922%	Swiss-Prot	strong database homology
`Q9ZP59`	Arabidopsis thaliana	Tubby-like F-box protein 1	65.751%	Swiss-Prot	strong database homology
`Q75HX5`	Oryza sativa subsp. japonica	Tubby-like F-box protein 8	72.588%	Swiss-Prot	strong database homology
`Q2QXB2`	Oryza sativa subsp. japonica	Tubby-like F-box protein 14	69.383%	Swiss-Prot	strong database homology
`Q7XSV4`	Oryza sativa subsp. japonica	Tubby-like F-box protein 7	63.713%	Swiss-Prot	strong database homology

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