Public Sigenae Contig Browser Chicken

About the Gallus gallus contigs database

Assembly

The Chicken EST contig browser is an INRA project aimed to produce and maintain an automatic annotation of Chicken EST libraries.

Currently, this is a preliminary portal for the annotation of Chicken Agenae ESTs. Please refer to the Agenae Project's Webpage for more details on the Chicken Agenae ESTs Project.

Annotation

Contigs were annotated searching sequence homologies against following databases:

• UniProtKB/Swiss-Prot Release 2010_05 of 20-Apr-2010
• RefSeq Protein Index Blast of 28-Apr-2010
• Pfam Release 24.0 of Jul-2009
• Sigenae Chicken Contigs V7
• RefSeq RNA Index Blast of 28-Apr-2010
• TIGR Chicken GgGI 11.0
• TIGR ZebraFinch TaguGI 1.0
• UniGene Chicken Build #42
• UniGene Human Build #223
• UniGene ZebraFinch Build #12
• Ensembl Chicken Transcripts WASHUC2 57
• Ensembl Human Transcripts GRCh37 57
• Ensembl ZebraFinch Transcripts taeGut3.2.4 57
• Chicken Ensembl Genome WASHUC2 57

Statistics

Assembly:	pgg7, May 2010
Number of base pairs (Contigs):	192,429,775
Number of sequences (EST/mRNA):	1,306,502
Total number of contigs:	260,521
Number of singlets:	128,750

Polymorphism:	May 2010
Number of putative SNPs:	24,534
Number of contigs including SNP:	9,282

Example Data Points

Jump directly to the example entry points:

Contig:	AI980024.p.gg.7
SNP:	snp_BU230997_718
Oligo:	RIGG00002	[ggallus_ARK-Genomics_20K(GEO:GPL6049)]
Oligo:	A_87_P000002	[ggallus_Agilent_44K(GEO:GPL4993)]