ENSEMBL Map viewer

Uh oh!

Ensembl is another human genome browser

Finding a region by map position

Click on the human icon to access the human database, and then click on any of the human chromosomes to access that chromosome

Then you will see the chromosome map. On left are the known genes, displayed as a histogram, in the center are the %GC in red, repeats in black, and snps in blue, and on right is the cytogenetic map. You can click on any of these to zoom in

You will then see three fields:

• This image shows the region that you have selected. You can click on it to move along the chromosome.



• This image shows genes and markers in the region that you have selected. You can click on these for more information.



• This image shows a detailed view.



It displays this information:
• The DNA sequence is again represented as alternating dark and light blue contigs. The blocks show individual contigs that make up the chromosomal assembly.
• TRANSCRIPTS shows the Ensembl predicted transcripts.
• EST TRANSCRIPTS shows transcript predictions made by Ensembl
• GENSCANS shows transcripts predicted by the Genscan gene prediction program
• Protein Hits to any protein from SWISS-PROT/TrEMBL and NCBI
• Human protein Hits to human (only) proteins from SWISS-PROT/TrEMBL and NCBI
• mRNA Hits to any mRNA from EMBL
• Human mRNA Hits to human (only) mRNA from EMBL
• UniGene Hits to Unigene clusters of GenBank sequence database entries.
• Markers Known markers. Mouse-over will show the id of the marker
• Position Position in basepairs

At ENSEMBL BLAST your sequence against the human genome build (or other data too).

Here is the sequence, give it a try!

Synteny Maps

ENSEMBL has the nicest synteny maps. Here is a link to chromosome 9, and the map is shown below.