Public Sigenae Contig Browser Pig

About the Sus scrofa contigs database

Assembly

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

Currently, this is a preliminary portal for the annotation of Pig Agenae ESTs. Please refer to the Agenae Project's Webpage for more details on the Pig 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 02-May-2010
• Pfam Release 24.0 of Jul-2009
• Sigenae Pig Contigs V7
• RefSeq RNA Index Blast of 02-May-2010
• TIGR Pig SsGI 14.0
• UniGene Human Build #223
• UniGene Pig Build #38
• Ensembl Human Transcripts GRCh37 57
• Ensembl Pig Transcripts Sscrofa9 57

Statistics

Assembly:	psc7, May 2010
Number of base pairs (Contigs):	162,383,027
Number of sequences (EST/mRNA):	2,124,738
Total number of contigs:	243,703
Number of singlets:	151,045

Polymorphism:	May 2010
Number of putative SNPs:	27,699
Number of contigs including SNP:	10,385

Example Data Points

Jump directly to the example entry points:

Contig:	AU058511.p.sc.7
Clone:	scac0025.c.23	[AGENAE_PigGeneric2(GEO:GPL3729)]
SNP:	snp_EW323770_165
Oligo:	po.00001	[sscrofa_Aarhus-University_27K(GEO:GPL5972)]
Oligo:	SS00000003	[sscrofa_SLA_CRB_17K(GEO:GPL7151)]
Oligo:	A_72_P000001	[sscrofa_Agilent_44K]