Question: Where can I obtain Transposable elements of Zebra fish (Danio)
gravatar for jaqx008
10 days ago by
jaqx00840 wrote:

Hello All, Can anyone recommend a link Where I can get a file with Transposable elements for zebrafish? Thanks

zebrafish transposones genome • 118 views
ADD COMMENTlink written 10 days ago by jaqx00840

There are some article links from NCBI and other sources:

Genome Analysis of Pseudoloma neurophilia: A Microsporidian Parasite of Zebrafish (Danio rerio).

Ndikumana S et al. J Eukaryot Microbiol. (2017)

Gal4 Driver Transgenic Zebrafish: Powerful Tools to Study Developmental Biology, Organogenesis, and Neuroscience.

Kawakami K et al. Adv Genet. (2016)

Excision of the tol2 transposable element of the medaka fish, Oryzias latipes, in zebrafish, Danio rerio.

Kawakami K et al. Gene. (1998)

Transposon tools and methods in zebrafish(2005)

ADD REPLYlink modified 10 days ago • written 10 days ago by natasha.sernova3.2k

Download link for Danio rerio.

ADD REPLYlink modified 10 days ago • written 10 days ago by genomax60k

Thanks. However, this is a fasta file. I am looking for a file with all TE classes specified. example is shown below

Bf_V2_1 1   797 -   bf_rep_71   Unknown        
Bf_V2_1     848 936 +   (TA)n               Simple_repeat  
Bf_V2_1     1236    1369    -   CR1-11_BF           LINE/CR1       
Bf_V2_1     2151    2171    +   (TA)n               Simple_repeat  
Bf_V2_1     2351    3238    -   bf_rep_71           Unknown        
Bf_V2_1     3229    3413    +   DNA-X-4_BF          DNA/Unknown    
Bf_V2_1     3400    3506    +   Harbinger-N11_BF    DNA/Harbinger  
Bf_V2_1     3507    3549    -   Harbinger-N11_BF    DNA/Harbinger  
Bf_V2_1     3605    4790    -   bf_rep_71           Unknown        
Bf_V2_1     4781    4965    +   DNA-X-4_BF          DNA/Unknown    
Bf_V2_1     4952    5056    +   Harbinger-N11_BF    DNA/Harbinger
ADD REPLYlink written 10 days ago by jaqx00840

Here is the page for Danio TE classes. Not in the format you want though.

ADD REPLYlink written 10 days ago by genomax60k
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