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Validation of Drosophila transcripts by full-length cDNA screening and sequencing

experiment: Validation of Drosophila transcripts by full-length cDNA screening and sequencing project: The Drosophila Transcriptome PI: Sue Celniker Labs: Sue Celniker
To validate models of Drosophila transcripts, we compare these models to the sequences of cDNA clones obtained by EST sequencing or targeted screening of cDNA libraries. The basis of the targeted library screening protocol, 'self-ligation of inverse PCR products' (SLIP), is a rapid and efficient method for capturing plasmid cDNAs. Targeted screening efficiently recovers cDNA clones representing rare and alternative transcripts. Full-insert sequencing of cDNA clones identifies complete transcript structures including 5' and 3' UTRs

All features generated by this experiment:
Feature Export
CDNAMatch 8839
This represents 4354 unique CDNAMatchs
TAB CSV GFF3 (for UCSC) SEQ
All GBrowse tracks generated for this experiment:
GBrowse tracks: by chromosome
There are 6 cDNA sequencing submissions for this experiment:
DCC id Name developmental stage cDNA library strain Embargoed until Features, GBrowse and Data Files
modENCODE_5328

Full-insert cDNA sequencing v6 UT_pOTB7_Library&oldid=8669 [ALL]
TD_pOTB7D_Library&oldid=69764 [ALL]
RH_pFLC1_Library&oldid=26338 [ALL]
HL_pOT2_Library&oldid=26332 [ALL]
TA_pOTB7D_Library&oldid=26339 [ALL]
...
all 14 cDNA librarys
embargo expired
CDNAMatch: 2269   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: Celniker_cDNA_v6


1 files Download data files
modENCODE_5329

Full-length cDNA sequencing v6 (MIP clones) TA_pOTB7D_Library&oldid=26339 [ALL]
TB_pOTB7D_Library&oldid=26340 [ALL]
GH_pOT2_Library&oldid=26330 [ALL]
LD_pOT2_Library&oldid=26334 [ALL]
LP_pOT2_Library&oldid=26336 [ALL]
...
all 10 cDNA librarys
embargo expired
CDNAMatch: 1930   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: Celniker_cDNA_v6


1 files Download data files
modENCODE_5330


Related to: modENCODE_574
modENCODE_577
modENCODE_555
modENCODE_5327

Long RT-PCR for transcript validation v1 L3 stage larvae [ALL]
Mixed Embryo 0-24 h [ALL]
Embryo 16-18 h [ALL]
Embryo 18-20 h [ALL]
Embryo 20-22 h [ALL]
...
all 15 developmental stages
yellow cinnabar brown speck [ALL]
Oregon-R-modENCODE [ALL]
embargo expired
CDNAMatch: 210   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: Celniker_RT-PCR_v1


1 files Download data files
modENCODE_5531


Related to: modENCODE_574
modENCODE_577
modENCODE_555
modENCODE_5327

Long RT-PCR for transcript validation vFinal L3 stage larvae [ALL]
Mixed Embryo 0-24 h [ALL]
Embryo 16-18 h [ALL]
Embryo 18-20 h [ALL]
Embryo 20-22 h [ALL]
...
all 15 developmental stages
yellow cinnabar brown speck [ALL]
Oregon-R-modENCODE [ALL]
embargo expired
CDNAMatch: 215   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: Celniker_RT-PCR_v2


1 files Download data files
modENCODE_5530

Full-length cDNA sequencing vFinal (MIP clones) TA_pOTB7D_Library&oldid=26339 [ALL]
TB_pOTB7D_Library&oldid=26340 [ALL]
GH_pOT2_Library&oldid=26330 [ALL]
LD_pOT2_Library&oldid=26334 [ALL]
LP_pOT2_Library&oldid=26336 [ALL]
...
all 12 cDNA librarys
embargo expired
CDNAMatch: 1938   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: Celniker_cDNA_vFinal


1 files Download data files
modENCODE_5529

Full-insert cDNA sequencing vFinal UT_pOTB7_Library&oldid=8669 [ALL]
TD_pOTB7D_Library&oldid=69764 [ALL]
RH_pFLC1_Library&oldid=26338 [ALL]
HL_pOT2_Library&oldid=26332 [ALL]
TA_pOTB7D_Library&oldid=26339 [ALL]
...
all 14 cDNA librarys
embargo expired
CDNAMatch: 2277   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: Celniker_cDNA_vFinal


1 files Download data files