LXL04_037954 | RubberDandelionOmics

Gene overview

LXL04_037954

Reference: OH-1004 Chr: Chr09 Coordinates: 26795734-26798193 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1227 bp · LXL04_037954|LXL04_037954|OH1004|cDNA

ATGGGGTACCAATGCGACCATTGTGGTGAAGCGAGATCTATGGTGTACTGTAGATCAGATGCGGCCTACTTATGTCTATCATGTGACCGTATAATTCATTCAGCAAATGCTTTATCAAAACGACATTCAAGAACACTTGTATGTGACAGGTGTAATTCACAGCCGGCAGTTGTGAGATGTGTTGAAGAAAAAGTGTCACTTTGTCAAAATTGTGATTGGGCGGGTCATAATAACCGGTCAAATACCACACATAGTAGACA...

CDS

Download CDS FASTA

1227 bp · LXL04_037954|LXL04_037954|OH1004|CDS

ATGGGGTACCAATGCGACCATTGTGGTGAAGCGAGATCTATGGTGTACTGTAGATCAGATGCGGCCTACTTATGTCTATCATGTGACCGTATAATTCATTCAGCAAATGCTTTATCAAAACGACATTCAAGAACACTTGTATGTGACAGGTGTAATTCACAGCCGGCAGTTGTGAGATGTGTTGAAGAAAAAGTGTCACTTTGTCAAAATTGTGATTGGGCGGGTCATAATAACCGGTCAAATACCACACATAGTAGACA...

Protein

Download Protein FASTA

408 aa · LXL04_037954|LXL04_037954|OH1004|PROTEIN

MGYQCDHCGEARSMVYCRSDAAYLCLSCDRIIHSANALSKRHSRTLVCDRCNSQPAVVRCVEEKVSLCQNCDWAGHNNRSNTTHSRQTLNCYSGCPSAVELSNIWSFMTETPLVIENSCEQGMGSMSIADNSQGPSRSNNNNNNNNNNNYYIDDDYNNNQDLVVNESNLWRGSSSVRGDDRQENVGQHGGPLNSSTLKISHSGKKDGEACDDDGFYVDFNMDEVDLSIENYEELFGVGHNDPEHLFAKDGIDCLFGGAES...

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_037954`
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_037954

Location Chr09:26795734-26798193 (+)

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
`At4g15250`	Putative zinc finger protein CONSTANS-LIKE 11.	No verified direct reference in this release
`At1g68190`	Putative zinc finger protein At1g68190.	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_037954 · 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: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.

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.

Nucleus0.890

Rank 1 · LXL04_037954 · OH-1004

Cytoplasm0.175

Rank 2 · LXL04_037954 · OH-1004

Cell membrane0.052

Rank 3 · LXL04_037954 · OH-1004

Endoplasmic reticulum0.030

Rank 4 · LXL04_037954 · OH-1004

Lysosome / Vacuole0.015

Rank 5 · LXL04_037954 · 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.

PF00643.30zf-B_box4-45 aa

PF00643.30zf-B_box46-88 aa

PF22586.2ANCHR-like_BBOX47-84 aa

PF06203.20CCT351-393 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_037954	`PF00643.30`	zf-B_box	4	45	1.7e-08	35.2
LXL04_037954	`PF00643.30`	zf-B_box	46	88	1.7e-08	35.2
LXL04_037954	`PF22586.2`	ANCHR-like_BBOX	47	84	3.4e-08	34.1
LXL04_037954	`PF06203.20`	CCT	351	393	1.8e-15	57.4

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9SSE5`	Arabidopsis thaliana	Zinc finger protein CONSTANS-LIKE 9	52.494%	Swiss-Prot	strong database homology
`Q9LUA9`	Arabidopsis thaliana	Zinc finger protein CONSTANS-LIKE 10	50.000%	Swiss-Prot	strong database homology
`Q9LJ44`	Arabidopsis thaliana	Zinc finger protein CONSTANS-LIKE 12	34.375%	Swiss-Prot	moderate database homology
`O23379`	Arabidopsis thaliana	Putative zinc finger protein CONSTANS-LIKE 11	48.182%	Swiss-Prot	weak database homology
`Q9C9F4`	Arabidopsis thaliana	Putative zinc finger protein At1g68190	31.970%	Swiss-Prot	moderate database homology

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