K.K. DNAFORM


FANTOM™ Clones: Technical Information

Vectors used during the RIKEN FANTOM Project

RIKEN has used different vectors and linkers during the FANTOM project. The Plate set name (e.g. PX) indicate, which vector had been used for a particular FANTOM™ clone. Please refer to the table given below to see which vector relates to which plate set. Click on the links under "Vector Map" in the table below to download the vector map as a PDF file or the vector sequence as a text file.


Plate set host Vector Vector Map 1st-primer*1 2nd-primer*2 g-tail poly-A
FK DH10B Please contact us Please contact us 1st-BS 2nd-linker - +
FL DH10B pFLCII PDF
Text
1st-BG(short Poly-A) 2nd-linker - short
FS DH10B pFLCIII PDF
Text
1st-BG Tag *3 2nd-linker - +
FT DH10B pFLCIII PDF
Text
1st-BG Tag *3 2nd-hairpin-linker - +
FU DH10B pFLCIII PDF
Text
1st-BS 2nd-NX/X + +
FV DH10B pFLCIII PDF
Text
1st-BG Tag *3 2nd-NX/X + +
FW DH10B pFLCIII PDF 1st-BG Tag *3 2nd-linker - +
FX DH10B Please contact us Please contact us 1st-BS 2nd-NX/X + +
FY JW366 pBAC PDF 1st-BG Tag *3 2nd-linker - +
PH DH10B pFLCI PDF
Text
1st-BG Tag *3 2nd-hairpin-linker - +
PI DH10B pFLCI PDF
Text
1st-BG Tag *3 2nd-linker - +
PK DH10B pFLCI PDF
Text
1st-BS 2nd-linker - +
PL DH10B pFLCI PDF
Text
1st-BG Tag *3 2nd-linker - +
PM DH10B pFLCI PDF
Text
1st-BG(short Poly-A) 2nd-linker - +
PN DH10B pFLCI PDF
Text
1st-BG 2nd-linker - +
PR DH10B pFLCI PDF
Text
1st-BG 2nd-linker - +
PS DH10B pFLCI PDF
Text
1st-BG(short Poly-A) 2nd-linker - short
PT DH10B pFLCI PDF
Text
1st-BG Tag *3 2nd-linker - +
PX

DH10B*4

DH5a*4

pFLCI PDF
Text
1st-BS 2nd-NX/X + +
PY DH10B pFLCI PDF
Text
1st-BS 2nd-NX/X + +
PZ DH5a pFLCI PDF
Text
1st-BS 2nd-NX/X + +
ZA SOLR modified pBluescript SK(+)/modified Bluescript1 PDF
Text
1st-NX 2nd-AT + +
ZX SOLR modified pBluescript SK(+)/modified Bluescript1 PDF
Text
1st-BS 2nd-NX/X + +
  • *1st-primer: 1st-primer for cDNA construction.
  • *2 2nd-primer: 2nd-primer for cDNA construction.
  • *3 Riken used modified primers for the preparation of pooled cDNA libraries. The so-called "1st-BG tag" primers have an additional short tag sequence after the cloning site.
  • *4 Clones in plates 635, 1008 and 1023 are provided on DH5a. All other clone of the PX set are on DH10B. Please search DNAFORM Clone Search Engine by clone ID to find Plate numbers.

FANTOM™ clone Shipment and Storage Information

DNAFORM provides FANTOM™ clones in two formats:

For FANTOM™ clones ordered as "Plasmid DNA", DNAFORM ships 50ng purified plasmid DNA. The dried DNA is stable at room temperature. After dissolving the DNA in TE buffer or alike, the DNA solution should be stored at -20°C. DNAFORM performs an ID check for all clones provided as plasmid DNA. To confirm clone identity, DNAFORM end-sequences the plasmid DNA and aligns the sequence data to the reference sequence.

For FANTOM™ clones ordered as "Slant Culture", DNAFORM ships living bacteria on agar. Upon arrival, the culture should be stored at 4°C. Note a bacterial culture cannot be stored for an extended period of time. Therefore we advise you to plate the bacteria on a LB agar plate with the appropriate antibiotic as soon as possible and to grow a new culture. It is preferable to select some individual clones and to check their inserts before using the clone(s) for further studies.

All FANTOM™ clones can be maintained on LB plates containing Ampicillin. For further information refer to the datasheet provided with the clones.


Color Cod Antibiotic Concentration
Red Ampicillin 100 μg/ml

1st-BG tag (for mixed library)

name site sequence length
1st-BG tag BamHI,
(SstI(NNNNNN=GAGCTC))
5'-GAGAGAGAGAAGGATCCAA
(NNNNNN)TTTTTTTTTTTTTTTTVN-3'
43mer

Notes: V=A,G,C N=A,G,C,T

About Plate set name

If you are uncertain about the vector used for your clone, search our DNAFORM Clone Search Engine with the Clone ID. In the search result the Plate set name will be indicated.

DNAFORM Clone Search Engine

Links

To learn more about the FANTOM Project and obtain the detailed information about FANTOM™ clones, see the RIKEN's Site.

FANTOM3: FUNCTIONAL ANNOTATION OF MOUSE-3


For the indivisual clone stoks, see "Clone Search" on the RIKEN's Site.

RIKEN:FANTOM3 clone set information

References