BAC Information

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BAC

Clone NameMSMg01-100D12
Chromosome19 (Build37)
Map Location 17,437,261 - 17,531,852
singlet/doubletdoublet
Overlap geneRfk, Pcsk5
Upstream geneGnaq, Gna14, LOC666665, Vps13a, Foxb2, A230083H22Rik, Gcnt1
Downstream geneEef1a1-ps1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-100D12.T7 (MSMg01no100_d12.b1)MSMg01-100D12.TJ (MSMg01no100_d12.g1)
ACCAG315973AG315974
length722719
length of high quality
(start - end)
227 (59 - 285)479 (73 - 551)
definitionCHROMAT_FILE: MSMg01no100_d12.b1 PHD_FILE: MSMg01no100_d12.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:58:01 2005CHROMAT_FILE: MSMg01no100_d12.g1 PHD_FILE: MSMg01no100_d12.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:58:01 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(17,437,261 - 17,437,561)(17,531,544 - 17,531,852)
sequence
GCGGCCGCTATACGACTCCTATATCCAGAGGATCCGCGGAATTCTCCAGG
CTACAAGCCACAGTCAAGGGGTCCTTAGGGAGAATTTCTTGTTAGACCTG
CTCTTTGCCTTGTGCACACAAAAACTAAAGTTCCTTGTTTTGTTTTGTTT
GGCTTGGTTTGGTTTGGTTTGGTTTTTAAAAAAGAACAGGTCTTCTTCGC
CCTATTCCTGGCTAGCTTTGAGCTCATTATGTAGCTCAAGTTGATTTAAG
GCCTACAAGTCCCTAGCCTTTGGCTTCCTGGGTGCTGAGATTGCAAGTGT
GTGCAACCATTTCTGGGTCTTAGATATCTTATATTACTCTTCATGTTTTA
TTTATAGCCCCCTTTACCAATATTTTTTATTACATATTTTCCTCAATTAC
ATTTCCAATGCTATCCCACAAGTCCTTCATACCCTCCCCCAACTTCCCTA
TCCACCCATACCCATTTTTTTTGTCCACGGCATTTCCCTGTACTGAGGTT
ATCATACCCCCTGCTTGTTCCATGTTCCCACTCTCTTCTCTGTTCGCTTT
CTTTGCCTATCCTTCTCTAACTATGATCTCTCCAGCCCAGACGTTTTGTC
TGTACTGTCTTCTTCTGATTCGTGGTGTGGTCTTATGTCGTGATTCCCCA
TGTCTTTTGTCCTGTTATCTGTTTTGTTGTCCTTCTTATGTGCTGTCTGC
GTGTTGTGTGTCGCCTGTGTGC
CGATGAAGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXTCTGTTCAGAGCTATGGTCCATTTTTTT
AATGGATCATTTGTTCTCTTGATTTTTTTTTGAGGCCTTGGTATATTCTG
GATATTAATCCTCTGTCAAATGGACAGTTGTCAAAGATTTTCTCTTTCTC
TGTGGGCTTCCTCCTCACTCAACTTACAGCTTCCTTTAATACACCAAAGC
ATTTTAGTTTTATGAAGGCCTACTTGTCAGTTGTCAGCCTTAATTACTAG
GCAAATGAAGCCCTATTCTGTAAGTCCTTTCCTGAACCTGTGTCTTGTAA
GCCATTGTCTGTTTTCTTCTATAAGTTCCAGTGTTTCTAGTTTCACAGTG
AGGTCTTTGATGGCACCTGGTCATTAGGAGTTGATTTTTATGACATTGAA
ACTTTGTGCACCTAAAATGTGCAAGCCATTTCAGCACAAATCCAAGATCA
TATACTCAGGCCACCATGTGTGGCCTCCTGTCCCAAAGTACAGATTGTGA
GATATTGGGATAAACCCTGGTTAGATGGGGAGAGGCAAATGTCAGCCTAT
GTCAAGAGGTTCCGAGAGCTGAGAAACGGGTTATCCCACCACAAGAGTGA
TGACTTCTTCTGACCTTCCCTGAGGATAACCTGCTACTTCCTCCTTTTCC
TCAGAGTGCATGCCTGATT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no100_d12.b1 MSMg01no100_d12.b1 CHROMAT_FILE:
MSMg01no100_d12.b1 PHD_FILE: MSMg01no100_d12.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:58:01 2005
         (227 letters)



>mm_chr19_17437136_17437761
          Length = 626

 Score =  217 bits (112), Expect = 5e-61
 Identities = 218/302 (72%), Gaps = 76/302 (25%)
 Strand = Plus / Plus

                                                                       
Query: 1   cacagtcaaggggtccttagggagaatttcttgttagacctgctctttgccttgtgcaca 60
           |||| |||||| || ||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 126 cacaatcaaggagttcttagggagaatttcttattagacctgctctttgccttgtgcaca 185

                                                                       
Query: 61  caaaaactaaagttccttgttttgttttgttt---------------------------- 92
           ||||||||||||||||||||||||||||||||                            
Sbjct: 186 caaaaactaaagttccttgttttgttttgttttgttttgttttgttttgttttgtttggc 245

                                                                       
Query: 93  ------------------------------------------ggcttggtttggtttggt 110
                                                     ||||||||||||||||||
Sbjct: 246 ttggcttggcttggcttggcttggcttggcttggcttggcttggcttggtttggtttggt 305

                                                                       
Query: 111 ttggttt-----ttaaaaaagaacaggtcttcttcgccctattcctggctagctttgagc 165
           |||||||     || ||||||||||||||||||||||||||||||  ||| |||||||||
Sbjct: 306 ttggtttggttttttaaaaagaacaggtcttcttcgccctattcccagctggctttgagc 365

                                                                       
Query: 166 tcattatgtagctcaagttgatttaaggcctacaagtccctagcctttggcttcctgggt 225
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 366 tcattatgtagctcaagtt-atttaaggcctacaagtccctagcctttggcttcctgggt 424

             
Query: 226 gc 227
           ||
Sbjct: 425 gc 426


Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.34    0.600     1.10 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 2, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 17
Number of extensions: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 227
Length of database: 626
Length adjustment: 9
Effective length of query: 218
Effective length of database: 617
Effective search space:   134506
Effective search space used:   134506
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)
Query= MSMg01no100_d12.g1 MSMg01no100_d12.g1 CHROMAT_FILE:
MSMg01no100_d12.g1 PHD_FILE: MSMg01no100_d12.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:58:01 2005
         (479 letters)



>mm_chr19_17530974_17531852
          Length = 879

 Score =  507 bits (262), Expect = e-148
 Identities = 298/310 (96%), Gaps = 2/310 (0%)
 Strand = Plus / Minus

                                                                       
Query: 171 accaaagcattttagttttatgaaggcctacttgtcagttgtcagccttaattactaggc 230
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 879 accaaagcattttagttttatgaaggcctacttgtcagttgtcagccttaattactaggc 820

                                                                       
Query: 231 aaatgaagccctattctgtaagtcctttcctgaacctgtgtcttgtaagccattgtctgt 290
           |||||||||||||||||| || ||||||||||||||||||||||||||||||||| ||||
Sbjct: 819 aaatgaagccctattctgaaaatcctttcctgaacctgtgtcttgtaagccattgcctgt 760

                                                                       
Query: 291 tttcttctataagttccagtgtttctagtttcacagtgaggtctttgatggcacct-ggt 349
           ||||||||||||||||||||||||||||||||||| ||||||||||||||| |  | |||
Sbjct: 759 tttcttctataagttccagtgtttctagtttcacactgaggtctttgatgg-agtttggt 701

                                                                       
Query: 350 cattaggagttgatttttatgacattgaaactttgtgcacctaaaatgtgcaagccattt 409
           ||| |||||||||||||||||||||||||||||||||||||||||||||  |||||||||
Sbjct: 700 catcaggagttgatttttatgacattgaaactttgtgcacctaaaatgtttaagccattt 641

                                                                       
Query: 410 cagcacaaatccaagatcatatactcaggccaccatgtgtggcctcctgtcccaaagtac 469
           ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 640 cagcacaaatccaagatcatatactcaggccaccaagtgtggcctcctgtcccaaagtac 581

                     
Query: 470 agattgtgag 479
           ||||||||||
Sbjct: 580 agattgtgag 571


Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.34    0.600     1.10 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 2, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 12
Number of extensions: 3
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 479
Length of database: 879
Length adjustment: 10
Effective length of query: 469
Effective length of database: 869
Effective search space:   407561
Effective search space used:   407561
X1: 8 (15.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 8 (16.4 bits)
S2: 8 (16.2 bits)