LXL04_030521 | RubberDandelionOmics

Gene overview

LXL04_030521

Reference: OH-1004 Chr: Chr06 Coordinates: 118068909-118069930 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

951 bp · LXL04_030521|LXL04_030521|OH1004|cDNA

ATGAAGATCCACTGCGACGTCTGTAACGAAAATGAGGCGTCGGTGTATTGCTCCGCCGACGAGGCAGCCCTCTGCGCAGCCTGCGACCATCGGGTGCACCACGCCAataaactcgccggaaaacacccCCGGTTCTCTCTCCTCCACCCGTCCCCGAAAGATTCGCCGCTTTGCGATATTTGTCAGGAGAAAAAAGCTTTCCTTTTTTGTCAACAAGACAGAGCTATACTCTGTAAAGACTGCGATGTTGCGATTCATAA...

CDS

Download CDS FASTA

951 bp · LXL04_030521|LXL04_030521|OH1004|CDS

ATGAAGATCCACTGCGACGTCTGTAACGAAAATGAGGCGTCGGTGTATTGCTCCGCCGACGAGGCAGCCCTCTGCGCAGCCTGCGACCATCGGGTGCACCACGCCAATAAACTCGCCGGAAAACACCCCCGGTTCTCTCTCCTCCACCCGTCCCCGAAAGATTCGCCGCTTTGCGATATTTGTCAGGAGAAAAAAGCTTTCCTTTTTTGTCAACAAGACAGAGCTATACTCTGTAAAGACTGCGATGTTGCGATTCATAA...

Protein

Download Protein FASTA

316 aa · LXL04_030521|LXL04_030521|OH1004|PROTEIN

MKIHCDVCNENEASVYCSADEAALCAACDHRVHHANKLAGKHPRFSLLHPSPKDSPLCDICQEKKAFLFCQQDRAILCKDCDVAIHKVNQHTQNHNRFLLTGVKLSPTASLYSSSTTTPPVASPVTKNAVVPDQFAELLPSPITNQSSLKTPNCYQESNGLGTGSTTSSISEYLIETLPGWHVEDFLDPPTNFPKVGDNDPSVIWGGDLLDRSLRSPFSTESMGIWVPQAPPPPLPSRYTHAVQQFEPSSMMGFGDQTIN...

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_030521`
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_030521

Location Chr06:118068909-118069930 (+)

Description Similar to BBX21: B-box zinc finger protein 21

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g75540`	Transcription activator that acts as a positive regulator of seedling photomorphogenesis.	SALT TOLERANCE HOMOLOG2, a B-box protein in Arabidopsis that activates transcription and positively regulates light-mediated development.2007 · DOI: 10.1105/tpc.107.054791
`At4g39070`	Acts as a positive regulator of seedling photomorphogenesis.	No verified direct reference in this release
`At1g78600`	Acts as a positive regulator of seedling photomorphogenesis and light-regulated inhibition of hypocotyl elongation, independently and in concert with HY5 and BBX21.	LZF1, a HY5-regulated transcriptional factor, functions in Arabidopsis de-etiolation.2008 · DOI: 10.1111/j.1365-313x.2008.03401.x The common function of a novel subfamily of B-Box zinc finger proteins with reference to circadian-associated events in Arabidopsis thaliana.2008 · DOI: 10.1271/bbb.80041 LZF1/SALT TOLERANCE HOMOLOG3, an Arabidopsis B-box protein involved in light-dependent development and gene expression, undergoes COP1-mediated ubiquitination.2008 · DOI: 10.1105/tpc.108.061747 COP1-mediated degradation of BBX22/LZF1 optimizes seedling development in Arabidopsis.2011 · DOI: 10.1104/pp.111.175042
`At1g06040`	Acts as a negative regulator of seedling photomorphogenesis and light-regulated inhibition of hypocotyl elongation.	Nuclear localization and interaction with COP1 are required for STO/BBX24 function during photomorphogenesis.2011 · DOI: 10.1104/pp.111.180208 Arabidopsis STO/BBX24 negatively regulates UV-B signaling by interacting with COP1 and repressing HY5 transcriptional activity.2012 · DOI: 10.1038/cr.2012.34 The Arabidopsis B-BOX protein BBX25 interacts with HY5, negatively regulating BBX22 expression to suppress seedling photomorphogenesis.2013 · DOI: 10.1105/tpc.113.109751
`At2g31380`	Acts as a negative regulator of seedling photomorphogenesis.	The Arabidopsis B-BOX protein BBX25 interacts with HY5, negatively regulating BBX22 expression to suppress seedling photomorphogenesis.2013 · DOI: 10.1105/tpc.113.109751

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_030521 · 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:0009416 response to light stimulus Biological Process

GO:0009640 photomorphogenesis Biological Process

GO:0009641 shade avoidance Biological Process

GO:0009658 chloroplast organization Biological Process

GO:0009718 anthocyanin-containing compound biosynthetic process Biological Process

GO:0009741 response to brassinosteroid Biological Process

GO:0010100 negative regulation of photomorphogenesis Biological Process

GO:0010117 photoprotection Biological Process

GO:0010228 vegetative to reproductive phase transition of meristem Biological Process

GO:0015995 chlorophyll biosynthetic process Biological Process

KEGG gene cross-reference

ath:AT1G06040

ath:AT1G75540

ath:AT1G78600

ath:AT2G31380

ath:AT4G39070

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.

Nucleus0.959

Rank 1 · LXL04_030521 · OH-1004

Cytoplasm0.128

Rank 2 · LXL04_030521 · OH-1004

Cell membrane0.027

Rank 3 · LXL04_030521 · OH-1004

Endoplasmic reticulum0.020

Rank 4 · LXL04_030521 · OH-1004

Plastid0.012

Rank 5 · LXL04_030521 · 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.

PF00643.30zf-B_box3-44 aa

PF00643.30zf-B_box55-92 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_030521	`PF00643.30`	zf-B_box	3	44	8.2e-14	52.2
LXL04_030521	`PF00643.30`	zf-B_box	55	92	8.2e-14	52.2

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
`Q9LQZ7`	Arabidopsis thaliana	B-box zinc finger protein 21	42.493%	Swiss-Prot	moderate database homology
`Q0IGM7`	Arabidopsis thaliana	B-box zinc finger protein 20	51.961%	Swiss-Prot	moderate database homology
`Q9SYM2`	Arabidopsis thaliana	B-box zinc finger protein 22	41.748%	Swiss-Prot	moderate database homology
`Q96288`	Arabidopsis thaliana	B-box zinc finger protein 24	56.637%	Swiss-Prot	weak database homology
`Q9SID1`	Arabidopsis thaliana	B-box zinc finger protein 25	57.547%	Swiss-Prot	weak database homology

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