Web-based analysis and annotation tools

The Crown Human Genome Center & The National Lab for Genomic Infrastructure

Supported by the Ministry of Science

WIS Genome &Bioinformtics

Nili Avidan

WIS Genome & Bioinformtics

WIS Genome &Bioinformtics

WIS Genome &Bioinformtics

WIS Genome & Bioinformtics

WIS Genome &Bioinformtics

WIS Genome &Bioinformtics

Use blast 2 sequence from BLAST tool to compare the new sequence to the known cDNA in the database

Use BLAST 2 sequence with blastX as program to detect AA change

AA sequence from database

Your new DNA sequence

WIS Genome &Bioinformtics

WIS Genome & Bioinformtics

WIS Genome &Bioinformtics

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GESTALT figure of an analyzed genomic intervalGESTALT figure of an analyzed genomic interval

Blastn results of this genomic sequenceBlastn results of this genomic sequence

KIAA0001H963

WIS Genome &Bioinformtics

H963 KIAA0001 K1LGR P2Y12

GPCR genes cluster(-strand)

aTRALPUSH(+strand) b

5’3’

5’ 3’

P2Y12LGR

NCBI clones

AC011103

AC078816

AC024886

AC020636

centromere telomere

76.9153. 0560.4175.00

71.18

54.07 62.34 55.60

57.33

Proscan promoter prediction

KB

WIS Genome &Bioinformtics

mRNA sequencesmRNA sequences• Full mRNA sequences: RefSeq

WIS Genome &Bioinformtics

• Expressed Sequence Tags (ESTs): dbEST

• EST clusters: UniGene

• Predicted genes

• EST assemblies: – TIGR Human Gene Index – The HIB database of annotated UniGene clusters (MIPS) – AllGenes based on DoTS assemblies (U Penn.) – STACK (SANBI)

WIS Genome &Bioinformtics

H89282H89282

WIS Genome & Bioinformtics

WIS Genome &Bioinformtics

WIS Genome &Bioinformtics

*

WIS Genome &Bioinformtics

WIS Genome &Bioinformtics

H89282H89282

WIS Genome &Bioinformtics

WIS Genome &Bioinformtics

MIPS assembly H11548S1 length: 1373Contain 21 members

TIGR assembly THC394205length: 1373Contain 12 members

*Predicted protein annotation

WIS Genome &Bioinformtics

WIS Genome &Bioinformtics

Multiple proteins alignment tool

Copy/past your protein and it ortholog/homolog here

Your E-mail

MULTICLUSTAL alignment of the five GPCRsMULTICLUSTAL alignment of the five GPCRs

Copy/Past you protein in the box

Found two known motif Histidine acid phosphatase at AA391-405 and a Zinc finger at AA1269-1292

WIS Genome & Bioinformtics

WIS Genome & Bioinformtics

WIS Genome & Bioinformtics

WIS Genome & Bioinformtics

WIS Genome &Bioinformtics

Kidney, embryonic cell line

Normal prostate tissue

Brain

Brain, primary tumor

Kidney, embryonic cell line

Brain, normal, Post-mortem

Brain, medulloblastoma

Thank You!