help  | faq  | software  | ARAPORT

Gene : CYTC-1 A. thaliana

Gene ID  ? AT1G22840
Brief Description  CYTOCHROME C-1  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? CYTOCHROME C-1 (CYTC-1); FUNCTIONS IN: electron carrier activity, copper ion binding; INVOLVED IN: cell proliferation; LOCATED IN: mitochondrion, plasma membrane; EXPRESSED IN: 31 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Cytochrome c, class IA/ IB (InterPro:IPR002327), Cytochrome c, class I (InterPro:IPR003088), Cytochrome c domain (InterPro:IPR009056); BEST Arabidopsis thaliana protein match is: cytochrome c-2 (TAIR:AT4G10040.1).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? Encodes cytochrome c. Contains two site II (TGGGCC/T) elements, which interact with a TCP-domain transcription factor, and a downstream internal telomeric repeat, and are required for expression of the Cytc-1 gene. Promoter directs preferential expression in root and shoot meristems and in anthers.  Source: TAIR, Jun 30, 2015.
Name  ? CYTOCHROME C-1
  • synonyms:
  • CYTOCHROME C-A,
  • ATCYTC-A

Locus History Displayer

Publication Counts Displayer

2 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
The promoters of the Arabidopsis cytochrome c genes, Cytc-1 and Cytc-2, were analyzed using plants transformed with fusions to the beta-glucuronidase coding sequence. 16113211
Evolutionarily well-conserved cytosolic cytochrome c, appearing in organisms from plants to mammals, interacts with a wide range of targets on programmed cell death. 24019145

Genomics

Sequence Feature Displayer

Gene Structure Displayer

J Browse Displayer

Overlapping Features Displayer

12 Flanking Regions

Flank size: from most upstream transcription start site, or most downstream transcription stop site

Region Name Flank Size Direction Length Gene Included? Chromosome Location
AT1G22840 0.5kb upstream 0.5kb upstream 1788   true Chr1: 8078787-8080574
AT1G22840 0.5kb upstream 0.5kb upstream 500   false Chr1: 8078787-8079286
AT1G22840 0.5kb downstream 0.5kb downstream 1788   true Chr1: 8079287-8081074
AT1G22840 0.5kb downstream 0.5kb downstream 500   false Chr1: 8080575-8081074
AT1G22840 1.0kb upstream 1.0kb upstream 2288   true Chr1: 8078287-8080574
AT1G22840 1.0kb upstream 1.0kb upstream 1000   false Chr1: 8078287-8079286
AT1G22840 1.0kb downstream 1.0kb downstream 2288   true Chr1: 8079287-8081574
AT1G22840 1.0kb downstream 1.0kb downstream 1000   false Chr1: 8080575-8081574
AT1G22840 3.0kb upstream 3.0kb upstream 4288   true Chr1: 8076287-8080574
AT1G22840 3.0kb upstream 3.0kb upstream 3000   false Chr1: 8076287-8079286
AT1G22840 3.0kb downstream 3.0kb downstream 4288   true Chr1: 8079287-8083574
AT1G22840 3.0kb downstream 3.0kb downstream 3000   false Chr1: 8080575-8083574

Proteins

Protein Displayer


Function

Gene Ontology Displayer

2 Pathways

Data Source: KEGG

Identifier Name
01100 Metabolic pathways
00920 Sulfur metabolism

Gene --> Ontology term

Gene --> Pathways


Expression

Plant Ontology Displayer

Bar Efp Browser Displayer

Array Expression

RNA-seq Expression

Co-expression

Save / Export

 

 

 

 



Interactions

Cytoscape Network Displayer


Homology

Homologue Displayer

Phytomine Ortholog Displayer


Stocks

Alelle Table Displayer

Stock Gene Table Displayer


 

Other

12 Data Sets

Name Description Version
BAR Annotations Lookup Mapping(s) between AGI locus and Affy Probeset identifier 10/08/2013
Genome Annotation Araport11 protein-coding, non-coding and transposable element genes Araport11 (06/2016)
RNA-seq expression Measure of gene expression levels (Transcripts per Million, TPM) quantified by Salmon Araport11 (06/2016)
PubMed to gene mapping Curated associations between publications and NCBI Gene records 8/12/2016
GO Annotation from UniProt GO annotations assigned by UniProt 8/01/2016
PO Annotation from TAIR Literature-based annotations of genes to Plant Ontology (PO) terms 06/30/2015
Swiss-Prot data set High-quality, manually annotated, non-redundant protein sequence database 2016_07
Panther data set PANTHER paralogs from Arabidopsis 11.0
KEGG pathways data set Wiring diagrams of molecular interactions, reactions, and relations 79.0
GeneRIF Concise phrase describing gene function and publication associated with NCBI Gene records 8/12/2016
IntAct interactions data set Curated binary and complex protein-protein interactions for Arabidopsis thaliana 8/02/2016
BioGRID interaction data set Curated set of genetic and physical interactions for Arabidopsis thaliana 3.4.139