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.

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.

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

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

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

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

□FANTOM Project

• J. Kawai, et al, Functional annotation of a full-length mouse cDNA collection. Nature, 409, 685-690 (2001)
• Y. Okazaki et al, Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Nature, 420, 563-573 (2002)
• FANTOM Consortium, The transcriptional landscape of the mammalian genome. Science, 309, 1559-1563 (2005)

□Basic techniques

• P. Carninci et al, Targeting a complex transcriptome: the construction of the mouse full-length cDNA encyclopedia. Genome Res., 13, 1273-1289 (2003)