$VAR1 = [
{
'value' => '3',
'directive' => 'gff-version'
},
{
'comment' => '. UCSC protein . . . . . ID=BAA19055;Parent=AB000114'
},
[
{
'source' => 'UCSC',
'seq_id' => 'chr17',
'child_features' => [
[
{
'source' => 'UCSC',
'seq_id' => 'chr17',
'child_features' => [],
'score' => undef,
'end' => '62468236',
'derived_features' => [],
'phase' => '1',
'strand' => '-',
'type' => 'CDS',
'attributes' => {
'Parent' => [
'A00469'
]
},
'start' => '62468039'
}
],
[
{
'source' => 'UCSC',
'seq_id' => 'chr17',
'child_features' => [],
'score' => undef,
'end' => '500',
'derived_features' => [],
'phase' => '2',
'strand' => '-',
'type' => 'fakething',
'attributes' => {
'Note' => [
'crazy multi-parent out-of-order thing',
' also including a Derives_from'
],
'Parent' => [
'AB000114',
'A00469'
],
'Derives_from' => [
'A00469'
]
},
'start' => '1'
}
],
[
{
'source' => 'UCSC',
'seq_id' => 'chr17',
'child_features' => [],
'score' => undef,
'end' => '62468654',
'derived_features' => [],
'phase' => '2',
'strand' => '-',
'type' => 'CDS',
'attributes' => {
'Parent' => [
'A00469'
]
},
'start' => '62468490'
}
],
[
{
'source' => 'UCSC',
'seq_id' => 'chr17',
'child_features' => [],
'score' => undef,
'end' => '62468038',
'derived_features' => [],
'phase' => undef,
'strand' => '-',
'type' => 'three_prime_UTR',
'attributes' => {
'Parent' => [
'A00469'
]
},
'start' => '62467934'
}
],
[
{
'source' => 'UCSC',
'seq_id' => 'chr17',
'child_features' => [],
'score' => undef,
'end' => '62468866',
'derived_features' => [],
'phase' => '1',
'strand' => '-',
'type' => 'CDS',
'attributes' => {
'Parent' => [
'A00469'
]
},
'start' => '62468747'
}
],
[
{
'source' => 'UCSC',
'seq_id' => 'chr17',
'child_features' => [],
'score' => undef,
'end' => '62469236',
'derived_features' => [],
'phase' => '1',
'strand' => '-',
'type' => 'CDS',
'attributes' => {
'Parent' => [
'A00469'
]
},
'start' => '62469076'
}
],
[
{
'source' => 'UCSC',
'seq_id' => 'chr17',
'child_features' => [],
'score' => undef,
'end' => '62469506',
'derived_features' => [],
'phase' => '0',
'strand' => '-',
'type' => 'CDS',
'attributes' => {
'Parent' => [
'A00469'
]
},
'start' => '62469497'
}
],
[
{
'source' => 'UCSC',
'seq_id' => 'chr17',
'child_features' => [],
'score' => undef,
'end' => '62469545',
'derived_features' => [],
'phase' => undef,
'strand' => '-',
'type' => 'five_prime_UTR',
'attributes' => {
'Parent' => [
'A00469'
]
},
'start' => '62469507'
}
],
[
{
'source' => 'UCSC',
'seq_id' => 'chr17',
'child_features' => [],
'score' => undef,
'end' => '500',
'derived_features' => [],
'phase' => '2',
'strand' => '-',
'type' => 'otherfakething',
'attributes' => {
'Note' => [
'crazy multi-parent thing',
' but this time coming after its parents'
],
'Parent' => [
'AB000114',
'A00469'
],
'Derives_from' => [
'A00469'
]
},
'start' => '1'
}
]
],
'score' => undef,
'end' => '62469545',
'derived_features' => [
[],
[]
],
'phase' => undef,
'strand' => '-',
'type' => 'mRNA',
'attributes' => {
'Alias' => [
'GH1'
],
'ID' => [
'A00469'
],
'Note' => [
'growth hormone 1'
],
'Dbxref' => [
'AFFX-U133:205840_x_at',
'Locuslink:2688',
'Genbank-mRNA:A00469',
'Swissprot:P01241',
'PFAM:PF00103',
'AFFX-U95:1332_f_at',
'Swissprot:SOMA_HUMAN'
]
},
'start' => '62467934'
}
],
[
{
'source' => 'UCSC',
'seq_id' => 'chr9',
'child_features' => [
[],
[
{
'source' => 'UCSC',
'seq_id' => 'chr9',
'child_features' => [],
'score' => undef,
'end' => '90518841',
'derived_features' => [],
'phase' => undef,
'strand' => '-',
'type' => 'three_prime_UTR',
'attributes' => {
'Parent' => [
'AB000114'
]
},
'start' => '90517946'
}
],
[
{
'source' => 'UCSC',
'seq_id' => 'chr9',
'child_features' => [],
'score' => undef,
'end' => '90519167',
'derived_features' => [],
'phase' => '1',
'strand' => '-',
'type' => 'CDS',
'attributes' => {
'Parent' => [
'AB000114'
]
},
'start' => '90518842'
}
],
[
{
'source' => 'UCSC',
'seq_id' => 'chr9',
'child_features' => [],
'score' => undef,
'end' => '90521248',
'derived_features' => [],
'phase' => '0',
'strand' => '-',
'type' => 'CDS',
'attributes' => {
'Parent' => [
'AB000114'
]
},
'start' => '90520309'
}
],
[],
[
{
'source' => 'UCSC',
'seq_id' => 'chr9',
'child_features' => [],
'score' => undef,
'end' => '90521264',
'derived_features' => [],
'phase' => undef,
'strand' => '-',
'type' => 'five_prime_UTR',
'attributes' => {
'Parent' => [
'AB000114'
]
},
'start' => '90521249'
}
],
[
{
'source' => 'UCSC',
'seq_id' => 'chr9',
'child_features' => [],
'score' => undef,
'end' => '90527968',
'derived_features' => [],
'phase' => undef,
'strand' => '-',
'type' => 'five_prime_UTR',
'attributes' => {
'Parent' => [
'AB000114'
]
},
'start' => '90527892'
}
]
],
'score' => undef,
'end' => '90527968',
'derived_features' => [],
'phase' => undef,
'strand' => '-',
'type' => 'mRNA',
'attributes' => {
'Alias' => [
'OMD'
],
'ID' => [
'AB000114'
],
'Ontology_term' => [
'GO:0007155',
'GO:0005194',
'GO:0005578'
],
'Note' => [
'osteomodulin'
],
'Dbxref' => [
'AFFX-U95:41031_at',
'Genbank-protein:BAA19055',
'Unigene:Hs.94070',
'AFFX-U133:205907_s_at',
'Genbank-mRNA:AB000114',
'Locuslink:4958',
'Swissprot:Q99983',
'Swissprot:OMD_HUMAN',
'Refseq-mRNA:NM_005014',
'Refseq-protein:NP_005005',
'PFAM:PF01462',
'PFAM:00560'
]
},
'start' => '90517946'
},
{
'source' => 'UCSC',
'seq_id' => 'chr30',
'child_features' => [
[],
[],
[],
[],
[],
[]
],
'score' => undef,
'end' => '45664',
'derived_features' => [],
'phase' => undef,
'strand' => '-',
'type' => 'mRNA',
'attributes' => {
'ID' => [
'AB000114'
],
'Note' => [
'guess what this thing has another location'
]
},
'start' => '11234'
}
],
[
{
'source' => 'BLASTN',
'seq_id' => 'chr9',
'child_features' => [],
'score' => '0.0',
'end' => '90521248',
'derived_features' => [],
'phase' => undef,
'strand' => '+',
'type' => 'match',
'attributes' => {
'ID' => [
'blastresult.1'
],
'Target' => [
'BC046356.1 178 1828'
],
'Gap' => [
'M78 I759 M1561'
]
},
'start' => '90518850'
}
],
];
$VAR1->[2][0]{'derived_features'}[0] = $VAR1->[2][0]{'child_features'}[1];
$VAR1->[2][0]{'derived_features'}[1] = $VAR1->[2][0]{'child_features'}[8];
$VAR1->[3][0]{'child_features'}[0] = $VAR1->[2][0]{'child_features'}[1];
$VAR1->[3][0]{'child_features'}[4] = $VAR1->[2][0]{'child_features'}[8];
$VAR1->[3][1]{'child_features'}[0] = $VAR1->[3][0]{'child_features'}[1];
$VAR1->[3][1]{'child_features'}[1] = $VAR1->[3][0]{'child_features'}[2];
$VAR1->[3][1]{'child_features'}[2] = $VAR1->[3][0]{'child_features'}[3];
$VAR1->[3][1]{'child_features'}[3] = $VAR1->[2][0]{'child_features'}[8];
$VAR1->[3][1]{'child_features'}[4] = $VAR1->[3][0]{'child_features'}[5];
$VAR1->[3][1]{'child_features'}[5] = $VAR1->[3][0]{'child_features'}[6];
$VAR1;