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 57.1 of 14-Apr-2009
• RefSeq Protein Release 34 of 6-March-2009
• Pfam Release 23.0 of 20-Jul-2008
• Sigenae Pig Contigs V6
• RefSeq RNA Release 34 of 6-March-2009
• TIGR Pig SsGI 13.0
• UniGene Human Build #218
• UniGene Pig Build #36
• Ensembl Human Transcripts NCBI36 53

Statistics

Assembly:	psc6, April 2009
Number of base pairs:	146,786,830
Number of sequences:	2,347,076
Total number of contigs:	236,498
Number of singlets:	138,109

Polymorphism:	April 2009
Number of putative SNPs:	26,959
Number of contigs including SNP:	10,343

Example Data Points

Jump directly to the example entry points:

Contig:	AU058511.p.sc.6
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]