Difference between revisions of "Part:BBa K3952000"

Revision as of 00:37, 20 October 2021

APOB-100 (Wild Type)

Located within chromosome 11 of the Bos taurus genome, the APOB gene codes for Apolipoprotein B, a protein involved in the transport of cholesterol in the bloodstream. Studies have reported an inheritable allele within the APOB gene that causes cholesterol deficiency (CD) in cattle. This part contains a fragment of the wildtype APOB gene. The CD allele differs from the wildtype by the insertion of a transposon, ERV2-1 between the 24th and 25th nucleotide of exon 5, the insertion polymorphism results in cholesterol deficiency (CD) within cattle. The Wildtype allele lacks this insertion, which would occur between nucleotides CT at positions 221 and 222 within this part.

BBa_K3952001

The APOB gene (Gene ID 494004) was located within the genomic DNA sequence of the Bos taurus, using the NCBI reference assembly.

Usage and Biology

The purpose of this part is to serve as a positive control for a Flappase genetic testing system. The system requires the amplification of DNA around the polymorphism; therefore, the sequence provided is only a fragment of the Bos taurus genome. The entire sequence of the gene was not cloned to showcase where the allele would be present (exon 5), and to facilitate ease of cloning.

This part does not contain the APOB gene allele.

Sequence and Features

Assembly Compatibility:

10
COMPATIBLE WITH RFC[10]
12
COMPATIBLE WITH RFC[12]
21
COMPATIBLE WITH RFC[21]
23
COMPATIBLE WITH RFC[23]
25
COMPATIBLE WITH RFC[25]
1000
COMPATIBLE WITH RFC[1000]

@@ Line 4: / Line 4: @@
 <partinfo>BBa_K3952000 short</partinfo>
-Located within chromosome 11 of the Bos taurus genome, the APOB gene codes for apolipoprotein B, a protein involved in the transport of cholesterol in the bloodstream. Studies have reported an inheritable allele within the APOB gene that causes cholesterol deficiency (CD) in cattle. This part contains the wild-type APOB gene with nucleotides CT at positions 221, 222. Part: BBa_K3952001 contains a transposable insertion between nucleotides CT at positions 221, 222. The insertion leads to cholesterol deficiency within the animal.
+Located within chromosome 11 of the ''Bos taurus'' genome, the ''APOB'' gene codes for Apolipoprotein B, a protein involved in the transport of cholesterol in the bloodstream. Studies have reported an inheritable allele within the ''APOB'' gene that causes cholesterol deficiency (CD) in cattle. This part contains a fragment of the wildtype ''APOB'' gene. The CD allele differs from the wildtype by the insertion of a transposon, ERV2-1  between the 24th and 25th nucleotide of exon 5, the insertion polymorphism results in cholesterol deficiency (CD) within cattle. The Wildtype allele lacks this insertion, which would occur between nucleotides CT at positions 221 and 222 within this part.
 [https://parts.igem.org/Part:BBa_K3952001| BBa_K3952001]
-The APOB gene '''(Gene ID 494004)''' was located within the genomic DNA sequence of the Bos taurus, using the NCBI reference assembly.
+The ''APOB'' gene '''(Gene ID 494004)''' was located within the genomic DNA sequence of the ''Bos taurus'', using the NCBI reference assembly.
 <!-- -->
 ==='''Usage and Biology'''===
-The purpose of this part is to serve as a positive control for a Flappase genetic testing system. The system requires the amplification of DNA around the polymorphism, therefore the sequence provide is only a fragment of the Bos taurus genome. The sequence was cut in order to only showcase where the allele would be present (exon 5) but also allow ease of cloning.
+The purpose of this part is to serve as a positive control for a Flappase genetic testing system. The system requires the amplification of DNA around the polymorphism; therefore, the sequence provided is only a fragment of the ''Bos taurus'' genome. The entire sequence of the gene was not cloned to showcase where the allele would be present (exon 5), and to facilitate ease of cloning.