BAC End Sequence Annotation

Rat BAC ends from CHORI-230 and Mouse BAC ends from RPCI-23 & RPCI-24 are available.

BAC End Sequence Annotation

Each sequence is annotated for contents of repeats (by RepeatMasker), ESTs (by WU-BLAST), and STSs (by WU-BLAST or e-PCR). Results are linked to GDB, GenBank, dbEST, dbGSS, dbSTS, SHGC, TIGR human gene index. Available FISH data Trask group at Fred Hutchinson Cancer Research Center as well as other mapping data will be displayed for each clone (out soon). Quality scores from PHRED are displayed for TIGR's BAC ends.

Naming Convention

BAC end name consists of clone name and primer (end).

Clone:	Clone name consits of plate#, row letter and column#. Row: 96_well: A-H, 384_well: A-P. column: 96_well: 1-12, 384_well: 1-24.
CalTech A:	clone_name starts with "A-".
RPCI-11:	clone_name starts with "R-".
mouse RPCI-23:	clone_name starts with "RPCI-23-".
mouse RPCI-24:	clone_name starts with "RPCI-24-".
mouse RPCI-24:	clone_name starts with "RPCI-24-".
rat CHORI-230:	clone_name starts with "CH230-".

Clone Name Plate Type Library Name Source

From To

A-1A1 A-1000H12 96 CIT978SK CalTech A

1A1 194P24 384 CIT978SK CalTech B

195A1 879P24 384 CIT-HSP CalTech C

2001A1 2423P24 384 CIT-HSP CalTech D1

2501A1 ? 384 CIT-HSP CalTech D2

R-1A1 ? 384 RPCI-11 Pieter de Jong

RPCI-23-1A1 RPCI-23-480P24 384 RPCI-23 Pieter de Jong

RPCI-24-61A1 ? 384 RPCI-24 Pieter de Jong

CH230-1A1 ? 384 CHORI-230 Pieter de Jong

End: T7 is the forward end and SP6 is the reverse end.

Clone Name		Plate Type	Library Name	Source
From	To	Plate Type	Library Name	Source
A-1A1	A-1000H12	96	CIT978SK	CalTech A
1A1	194P24	384	CIT978SK	CalTech B
195A1	879P24	384	CIT-HSP	CalTech C
2001A1	2423P24	384	CIT-HSP	CalTech D1
2501A1	?	384	CIT-HSP	CalTech D2
R-1A1	?	384	RPCI-11	Pieter de Jong
RPCI-23-1A1	RPCI-23-480P24	384	RPCI-23	Pieter de Jong
RPCI-24-61A1	?	384	RPCI-24	Pieter de Jong
CH230-1A1	?	384	CHORI-230	Pieter de Jong

BAC End Sequence Annotation

Naming Convention

Enter BAC End Name for Annotation Report