Question: question about FASTA file extracted from RSAT
0
gravatar for kanwarjag
7 days ago by
kanwarjag800
United States
kanwarjag800 wrote:
>Homo_sapiens-ENSG00000186115-CYP4F2-ENST00000011989    ENSG00000186115-ENST00000011989; downstream from -2000 to -1; size: 2000; location: chromosome:GRCh38:19:1:58617616:1 15878301 15880300 R

I used RSAT tool extract FASTA file. I get the header as above I pretty much understand most of the header information, however I am not sure what is referring to 1:58617616.

Thanks

chip-seq • 92 views
ADD COMMENTlink modified 7 days ago by Pierre Lindenbaum99k • written 7 days ago by kanwarjag800
0
gravatar for Pierre Lindenbaum
7 days ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum99k wrote:

it's the size of the chr19

$ mysql --user=genome --host=genome-mysql.soe.ucsc.edu -A -D hg38 -e 'select chrom,size from chromInfo where chrom="chr19"'
+-------+----------+
| chrom | size     |
+-------+----------+
| chr19 | 58617616 |
+-------+----------+
ADD COMMENTlink written 7 days ago by Pierre Lindenbaum99k
$ wget -O- -q https://genome.ucsc.edu/goldenpath/help/hg38.chrom.sizes | grep -w chr19
chr19   58617616
ADD REPLYlink written 7 days ago by cpad01122.3k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1288 users visited in the last hour