This track shows the number of 5' cap analysis gene expression (CAGE) tags
that map to the genome on the "plus" and "minus" strands at
a specific location. For clarity, only the first 5' nucleotide in the tag
(relative to the transcript direction) is considered. Areas in which many tags
map to the same region may indicate a significant transcription start site.
Display Conventions and Configuration
The position of the first 5' nucleotide in the tag is represented by a solid
block. The height of the block indicates the number of 5' cDNA starts that map
at that location.
This composite annotation track contains multiple subtracks that
may be configured in a variety of ways to highlight different aspects of the
displayed data. The graphical configuration options are shown at the top of
the track description page, followed by a list of subtracks.
For more information about the graphical configuration options, click the
configuration help link. To display only selected subtracks, uncheck the
boxes next to the tracks you wish to hide.
The CAGE tags are sequenced from the 5' ends of full-length cDNAs produced using RIKEN full-length cDNA technology. To create the tag, a linker was
attached to the 5' end of full-length cDNAs which were selected by cap
trapping. The first 20 bp of the cDNA were cleaved using class II restriction
enzymes, followed by PCR amplification and then concatamers of the resulting
32 bp tags were formed for more efficient sequencing. For more information on
CAGE analysis, see Shiraki et al. (2003) below. Refer to the
for information about RIKEN full-length cDNA technologies. The mapping
methodology employed in this annotation will be described in upcoming
The techniques used to verify these data will be described in upcoming
These data were contributed by the Functional Annotation of Mouse
Consortium, RIKEN Genome Science Laboratory and
RIKEN Genome Exploration Research Group
(Genome Network Project Core Group).
FANTOM Consortium: P. Carninci, T. Kasukawa, S. Katayama, Gough,
M. Frith, N. Maeda, R. Oyama, T. Ravasi, B. Lenhard, C. Wells, R.
Kodzius, K. Shimokawa, V. B. Bajic, S. E. Brenner, S. Batalov, A. R. R.
Forrest, M. Zavolan, M. J. Davis, L. G. Wilming, V. Aidinis, J. Allen,
A. Ambesi-Impiombato, R. Apweiler, R. N. Aturaliya, T. L. Bailey, M.
Bansal, K. W. Beisel, T. Bersano, H. Bono, A. M. Chalk, K. P. Chiu, V.
Choudhary, A. Christoffels, D. R. Clutterbuck, M. L. Crowe, E. Dalla,
B. P. Dalrymple, B. de Bono, G. Della Gatta, D. di Bernardo, T. Down,
P. Engstrom, M. Fagiolini, G. Faulkner, C. F. Fletcher, T. Fukushima,
M. Furuno, S. Futaki, M. Gariboldi, P. Georgii-Hemming, T. R. Gingeras,
T. Gojobori, R. E. Green, S. Gustincich, M. Harbers, V. Harokopos, Y.
Hayashi, S. Henning, T. K. Hensch, N. Hirokawa, D. Hill, L. Huminiecki,
M. Iacono, K. Ikeo, A. Iwama, T. Ishikawa, M. Jakt, A. Kanapin, M.
Katoh, Y. Kawasawa, J. Kelso, H. Kitamura, H. Kitano, G. Kollias, S.
P. T. Krishnan, A.F. Kruger, K. Kummerfeld, I. V. Kurochkin,
L. F. Lareau, L. Lipovich, J. Liu, S. Liuni, S. McWilliam, M. Madan
Babu, M. Madera, L. Marchionni, H. Matsuda, S. Matsuzawa, H. Miki, F.
Mignone, S. Miyake, K. Morris, S. Mottagui-Tabar, N. Mulder, N. Nakano,
H. Nakauchi, P. Ng, R. Nilsson, S. Nishiguchi, S. Nishikawa, F. Nori,
O. Ohara, Y. Okazaki, V. Orlando, K. C. Pang, W. J. Pavan, G. Pavesi,
G. Pesole, N. Petrovsky, S. Piazza, W. Qu, J. Reed, J. F. Reid, B. Z.
Ring, M. Ringwald, B. Rost, Y. Ruan, S. Salzberg, A. Sandelin, C.
Schneider, C. Schoenbach, K. Sekiguchi, C. A. M. Semple, S. Seno,
L. Sessa, Y. Sheng, Y. Shibata, H. Shimada, K. Shimada, B. Sinclair, S.
Sperling, E. Stupka, K. Sugiura, R. Sultana, Y. Takenaka, K. Taki, K.
Tammoja, S. L. Tan, S. Tang, M. S. Taylor, J. Tegner, S. A. Teichmann,
H. R. Ueda, E. van Nimwegene, R. Verardo, C. L. Wei, K. Yagi, H.
Yamanishi, E. Zabarovsky, S. Zhu, A. Zimmer, W. Hide, C. Bult, S. M.
Grimmond, R. D. Teasdale, E. T. Liu, V. Brusic, J. Quackenbush, C.
Wahlestedt, J. Mattick, D. Hume.
RIKEN Genome Exploration Research Group: C. Kai, D. Sasaki, Y.
Tomaru, S. Fukuda, M. Kanamori-Katayama, M. Suzuki, J. Aoki, T.
Arakawa, J. Iida, K. Imamura, M. Itoh, T. Kato, H. Kawaji, N.
Kawagashira, T. Kawashima, M. Kojima, S. Kondo, H. Konno, K. Nakano, N.
Ninomiya, T. Nishio, M. Okada, C. Plessy, K. Shibata, T. Shiraki, S.
Suzuki, M. Tagami, K Waki, A. Watahiki, Y. Okamura-Oho, H. Suzuki, J.
General Organizer: Y. Hayashizaki
Shiraki, T., Kondo, S., Katayama, S., Waki, K., Kasukawa, T., Kawaji, H.,
Kodzius, R., Watahiki, A., Nakamura, M. et al.
Cap analysis gene expression for high-throughput analysis of
transcriptional starting point and identification of promoter usage.
Proc Natl Acad Sci U S A. 100(26), 15776-81 (2003).