LXL04_020221 | RubberDandelionOmics

Gene overview

LXL04_020221

Reference: OH-1004 Chr: Chr04 Coordinates: 57438945-57441904 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1346 bp · LXL04_020221|LXL04_020221|OH1004|cDNA

ATGGAAGGGTCTCACAAAACAGTTGATGAAGCTGAAAGTAGAAGTAAGGCACCTGATTCGGTTCCAATTGTTGATGttgaagaagagaaggaagaAGTTGCAGAAAATAAAGGTGGTTATAAAACATCTTGGGTGTGGCAACATTTTGATCAAAAAGCCATAAAGAAAGGAGTAGAAAAAATTAAATGCCCATTTTGTCCACAAATGATGTGTGCAAATTCGAAGAAGAATGCAAATGCTTTATCAAAACGACATTCAAG...

CDS

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1323 bp · LXL04_020221|LXL04_020221|OH1004|CDS

ATGGAAGGGTCTCACAAAACAGTTGATGAAGCTGAAAGTAGAAGTAAGGCACCTGATTCGGTTCCAATTGTTGATGTTGAAGAAGAGAAGGAAGAAGTTGCAGAAAATAAAGGTGGTTATAAAACATCTTGGGTGTGGCAACATTTTGATCAAAAAGCCATAAAGAAAGGAGTAGAAAAAATTAAATGCCCATTTTGTCCACAAATGATGTGTGCAAATTCGAAGAAGAATGCAAATGCTTTATCAAAACGACATTCAAG...

Protein

Download Protein FASTA

440 aa · LXL04_020221|LXL04_020221|OH1004|PROTEIN

MEGSHKTVDEAESRSKAPDSVPIVDVEEEKEEVAENKGGYKTSWVWQHFDQKAIKKGVEKIKCPFCPQMMCANSKKNANALSKRHSRTLVCDRCNSQPAVVRCVEEKVSLCQNCDWAGHNNGSNTTHSRQTLNCYSGCPLAVELSNIWSFMTETPLVIENSCEQGMGSMSIADNSQGPSRSNNNNNNNNNDDDNNDDYNNNQYLVVNESNLWRGSSSVRADDRQENVGQQGGPLNSSTLKISHSGKKDGEACDDDDGFYV...

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_020221`
TK1151 ID	TkA03G458160
OH-1004 ID	LXL04_020221
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	44.700
Protein coverage (%)	TK1151 30.000 / OH-1004 19.318 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_020221

Location Chr04:57438945-57441904 (+)

Description Similar to COL9: Zinc finger protein CONSTANS-LIKE 9

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g07650`	Zinc finger protein CONSTANS-LIKE 9.	No verified direct reference in this release
`At5g48250`	Zinc finger protein CONSTANS-LIKE 10.	No verified direct reference in this release
`At3g21880`	Zinc finger protein CONSTANS-LIKE 12.	No verified direct reference in this release
`At1g68190`	Putative zinc finger protein At1g68190.	No verified direct reference in this release
`At4g15250`	Putative zinc finger protein CONSTANS-LIKE 11.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_020221 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0007623 circadian rhythm Biological Process

GO:0010629 negative regulation of gene expression Biological Process

GO:0048579 negative regulation of long-day photoperiodism, flowering Biological Process

GO:2000032 regulation of secondary shoot formation Biological Process

GO:0005634 nucleus Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0008270 zinc ion binding Molecular Function

KEGG gene cross-reference

ath:AT1G68190

ath:AT3G07650

ath:AT3G21880

ath:AT4G15250

ath:AT5G48250

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.

Nucleus0.928

Rank 1 · LXL04_020221 · OH-1004

Cytoplasm0.138

Rank 2 · LXL04_020221 · OH-1004

Cell membrane0.052

Rank 3 · LXL04_020221 · OH-1004

Endoplasmic reticulum0.031

Rank 4 · LXL04_020221 · OH-1004

Plastid0.014

Rank 5 · LXL04_020221 · 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.

PF22586.2ANCHR-like_BBOX90-127 aa

PF06203.20CCT394-436 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_020221	`PF22586.2`	ANCHR-like_BBOX	90	127	2.3e-08	34.7
LXL04_020221	`PF06203.20`	CCT	394	436	1.9e-15	57.3

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
`Q9SSE5`	Arabidopsis thaliana	Zinc finger protein CONSTANS-LIKE 9	47.804%	Swiss-Prot	moderate database homology
`Q9LUA9`	Arabidopsis thaliana	Zinc finger protein CONSTANS-LIKE 10	43.194%	Swiss-Prot	moderate database homology
`Q9LJ44`	Arabidopsis thaliana	Zinc finger protein CONSTANS-LIKE 12	31.759%	Swiss-Prot	moderate database homology
`Q9C9F4`	Arabidopsis thaliana	Putative zinc finger protein At1g68190	29.388%	Swiss-Prot	weak database homology
`O23379`	Arabidopsis thaliana	Putative zinc finger protein CONSTANS-LIKE 11	42.157%	Swiss-Prot	weak database homology

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