Public Sigenae Contig Browser Cow

About the Bos taurus contigs database

Assembly

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

Currently, this is a preliminary portal for the annotation of Cattle Agenae ESTs. Please refer to the Agenae Project's Webpage for more details on the Cattle 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 Cattle Contigs V9
• RefSeq RNA Index Blast of 28-Apr-2010
• TIGR Cattle BtGI 12.0
• UniGene Cattle Build #95
• UniGene Human Build #223
• Ensembl Cattle Transcripts Btau_4.0 57
• Ensembl Human Transcripts GRCh37 57
• Cattle Ensembl Genome Btau_4.0 57

Statistics

Assembly:	pbt9, May 2010
Number of base pairs (Contigs):	171,380,603
Number of sequences (EST/mRNA):	1,572,570
Total number of contigs:	214,418
Number of singlets:	146,545

Polymorphism:	May 2010
Number of putative SNPs:	24,197
Number of contigs including SNP:	9,349

Example Data Points

Jump directly to the example entry points:

Contig:	AV613784.p.bt.9
SNP:	snp_AM036154_221
Oligo:	Bt00000111	[btaurus_CRB_22K(GEO:GPL6694)]
Oligo:	46239_CL1Contig1	[btaurus_ARK-Genomics_24K]
Oligo:	A_73_100000	[btaurus_Agilent_44K(GEO:GPL7053)]