FB2024_03 , released June 25, 2024
Reference Report
Open Close
Reference
Citation
Levis, R. (2017.7.20). Insertion site for P{lacW}l(1)G0272[G0272]. 
FlyBase ID
FBrf0236112
Publication Type
Personal communication to FlyBase
Abstract
PubMed ID
PubMed Central ID
Text of Personal Communication
FlyBase and the BDSC both currently have the sequence location of P{lacW}l(1)G0272G0272 (FBti0013149) as  X:16 ,447,340..16,447,611 +.  Ulrich Schaefer submitted a 400 bp flanking sequence that was determined using 3' inverse PCR.  The first ~150 bp of this sequence have N's scattered through it.  When I align the entire 400 bp to the release 6 reference sequence, I get a credible alignment of the segment from 20-400 to  X:16447236-16447611 (+) (see below).  Because this is a 3' flank, that would put the insertion site at  X:16447216..16447236 , which is ~100 bp to the left of the range currently given by FlyBase and the BDSC.
This places the insertion site ~ 223-243 bp upstream of the 5' end of the eIF2alpha gene.
   Plus Strand HSP:
 Score = 1345 (374 bits), P = 0
 Identities = 340/381 (89.2%), Positives = 340/381 (89.2%), Strand = Plus / Plus
Query:       20 ATGTTNATGTTTGTTAAANTTTATTGCGGTNAAANAAAANTTGCGATAATANCCCNATGA       79
               ||||| || ||||||||| ||||||||  |   | |||| |||||| |||   || |  |
Sbjct: 16447236 ATGTTAATTTTTGTTAAA-TTTATTGCAATATTACAAAAATTGCGAAAATTGACCCAAAA 16447294
Query:       80 GTTNAATTCTCGAAAAGTTATATAGATTGCTAATACTGNATATATNAGGAATAAAAAGCA      139
               ||| ||||||| |||||||||||||||||||||||||| ||| || ||||||||||||||
Sbjct: 16447295 GTTAAATTCTCAAAAAGTTATATAGATTGCTAATACTG-ATAAAT-AGGAATAAAAAGCA 16447352
Query:      140 GTTGTTAAGTTATCAATATGTCACTTTTGAGCCAAGTTATGATGATAGTTCCCATAAGTC      199
               ||||||   ||||| ||||||||||||| | ||| |||||||||||| |||||||| |||
Sbjct: 16447353 GTTGTTCTTTTATCTATATGTCACTTTTTATCCATGTTATGATGATAATTCCCATATGTC 16447412
Query:      200 AAATGTTCATTTTTCATATTTATCTGTTTAAATTTGCAGTAACATTTTAAAAGGTTGCAT      259
               |||| |||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 16447413 AAATTTTCATTTTTCATATTTATCTGTTTAAATTTGCAG-AACATTTTAAAAGGTTGCAT 16447471
Query:      260 ATAATTCGCAAACAAAAAGGCCATTAAATATGTAATGACATGTAGCTTAAATCGGTTTTT      319
               || | ||||| ||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 16447472 ATTA-TCGCATACAAAAAGGCCATTAAATATGTAATGACATGTAGCTTGAATCGGTTTTT 16447530
Query:      320 TTAGAAGCTTCTCTTTTAATTTAAAGAACTTTAGAAAATTTGTATAGGTTGGCTCCGTTT      379
               ||||||||| | ||||||||||||||||| |||||| |||||||||||||||||||||||
Sbjct: 16447531 TTAGAAGCTACACTTTTAATTTAAAGAACATTAGAATATTTGTATAGGTTGGCTCCGTTT 16447590
Query:      380 ATTAGTTAATTATGACAGCGC      400
               |||||||||||||||||||||
Sbjct: 16447591 ATTAGTTAATTATGACAGCGC 16447611
DOI
Associated Information
Comments
Associated Files
Other Information
Secondary IDs
    Language of Publication
    English
    Additional Languages of Abstract
    Parent Publication
    Publication Type
    Abbreviation
    Title
    ISBN/ISSN
    Data From Reference
    Genes (1)
    Insertions (1)