Annotated Sequence

Introduction

The ElDorado Annotated Sequence page shows the genomic sequence identified after input of the user sequence or gene. The format is GenBank and includes the annotations found in the Annotation & Analysis table. The sequence can be saved as a text file to local disk or to the Genomatix sequence directory on the server for further analysis.

Output

The ElDorado Annotated Sequence page provides a sequence in GenBank format.

The definition line shows the identifier of the contig and the positions the sequence was extracted from. The chromosome number is also provided.
The feature table lists all elements that were mapped to this genomic sequence fragment in sequential order of the start positions.
- Genomatix' annotated elements are listed as promoter, TSR, Module, SMAR, and repeat_region.
- The annotations from the Annotation & Analysis table are provided for each element.

Example:

LOCUS       NM_004924    100000 bp    DNA
DEFINITION  Fragment of sequence NT_011109 extracted from pos. 11397210 - 11497209 
            on chromosome 19.
ACCESSION   ?
COMMENT     Genomatix ElDorado 3.0.0
FEATURES             Location/Qualifiers				    
     source          1..100000
                     /organism="Homo sapiens"
                     /chromosome="19"
     repeat_region   <1..26
                     /name="ALU" 
     repeat_region   726..902
                     /name="ALU" 
...
     promoter        8790..9436
                     /gene="Promoter for Loc81 (transcripts: 
                     ACTN4/NM_004924)" 
                     /note="annotation by Genomatix" 
     PromoterInspect 9012..9375
     Module          9029..9081
                     /name="SP1F_SP1F_01" 
     prim_transcript 9336..91211
                     /gene="ACTN4" 
                     /product="actinin, alpha 4" 
                     /transcript_id="NM_004924" 
     exon            9336..9556
                     /gene="ACTN4" 
                     /number="1" 
     5'UTR           9336..9394
                     /gene="ACTN4" 
     intron          9557..62248
                     /gene="ACTN4" 
                     /number="1" 
     variation       9617..9617
                     /allele="C" 
                     /allele="T" 
...
     intron          complement(99997..>100000)
                     /gene="CAPN12" 
                     /number="7" 
BASE COUNT    22199 a  26647 c  26865 g  24289 t
ORIGIN
        1 TGATCACACC ACTGCACTCC AGCTTGGGTG ACAGACCCTG TCTCAAAAAA GAAAATATAA 
       61 GCCATTGTTA ATTTCAGGCT CAGAAGTGTT TGTCACCAAG GTTGCAAGCT AGTCCTCAGT 
      121 ACTATTCTGT ATGGAGAGAC TTCATGAGAA AATTAGTATA TATATATTTT TTCCTCTCAA 
...
    99841 TCCTTCAACT GGGGCTCGCC CTCCCTGAAC CCCTTGGCAG AGACCCTCCC AGAGGCAGAG 
    99901 CTGGGACCCT GACGAACTGA CCAGAACTCG CCATCCTCCT TTTTCACCAG CAGGGCATCG 
    99961 CGGCACTCGG TGGGGAGTGT GTCCCAGCGT GGGCAGCTGG 
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