BAC Information

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BAC

Clone NameMSMg01-539N19
Chromosome12 (Build37)
Map Location 33,889,144 - 34,052,649
singlet/doubletdoublet
Overlap geneAtxn7l4, Atxn7l1
Upstream genePik3cg, 2010109K11Rik, LOC100043548, Pbef1, LOC100043553, 4933406C10Rik, Sypl, LOC100043109, 1110049B09Rik
Downstream gene4930504H06Rik, Twistnb, LOC668801, LOC668806, Ferd3l, Twist1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-539N19.T7 (MSMg01no539_n19.b1)MSMg01-539N19.TJ (MSMg01no539_n19.g1)
ACCAG606252AG606253
length798785
length of high quality
(start - end)		577 (47 - 623)549 (73 - 621)
definitionCHROMAT_FILE: MSMg01no539_n19.b1 PHD_FILE: MSMg01no539_n19.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:18:58 2005CHROMAT_FILE: MSMg01no539_n19.g1 PHD_FILE: MSMg01no539_n19.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:18:58 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(33,889,144 - 33,889,717)(34,052,101 - 34,052,649)
sequence
CCTATGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGCGCGG
AATTCTCTTTGTTCACCTGACTGCTGAGTGGAGAAATTCAGAAGAGAGAT
CCGAGTTGTCTCCAGTGGATCTGCTGAGACAGGGCCCACGGCAGGCCTGG
TGATTCTAATGGGTGACCTTCTAAACACCATCTGCGGCGTGTGAGCTGGG
GTTATGTGAGCTACTGGTCTCAAGTTTAGCTGGCCAGGCCTGAACTCAGA
GTAAAACTCCATGTGGTACCTCTGCCCACGGGTTCTAGGTTGCATCTGAG
GTCTGAGGCTATTATGCAGCCCTCAGAACAGGATTGTTTGCCCAGTGGTG
GTGAAGGATTGGCCTGAAGCATCCACACTTTGGATCCTGGAATTATTTGC
CAGATGGCCAGCCAAGCACCGAGCACTGGGATTAGTGTTTGACCATAGAG
CACAAAGGGGGTTTTCTCTTGAGCCAAGAGGTGAGTATACAAATGGCAGG
ACATTGCTAGCATCCTATTTTAGGTAGATTTTTCAGAAACTAGGTTTTTA
CTAGCCCCAAACCACCCAAGGCCCTAACTATAATACCCTGGACCCTATTT
CAGCACAGAACATCTCTACCAGAGGTGTGCTAGTCTACTGTCTTCCTGAG
AAGGTTAGCAGCCCTCATTTGTCGCACACCATTGAACTCCATGAATCTCT
AAAAGTAACTGAGAGGGGCAGGGTGAAACATGTCCTAGGAGTCCCACAGA
ATACGCCCTGCATTCTAGAGCTGTGCCCCCGAGGTATTCATCGTAACA

CTTTATTTTGGGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXTTACGCTTTTTTCCTTCTGATTTGTCAA
AGGAGAGGGGCAGAGAAGACACAGCGTTGTGTGAGGCCAGAGAGAGGTCC
CCTGCATGGAGTGCAAGGGAGGGCACGGAGAGGGGACAGGGGCCACTGCT
GCCACCCACGGCGCCCACCTGTCTCACTATGTCCATGGGGCCGCTGGGCA
GTGAGGTCCGTCCTGAGGGCTCCAGCTTGGCACTGAGTGGGCTCACCCCG
TTATTTGAGTTGTGCACAGACAGACTGTTATAGGGAGGGGCTGCCTGATA
GGAGTTCAAAGCAGAACTGGCATTCAGAATGCAGTTCTTTTTGTGGGGCC
CTGACAATGGAGACGAGAGGGGAGCCTGCAAGGATAAGGAGGAGGCGGAA
GTGGAGGACTGCGGCTTCCTCTTTTTGTTACTTGGAGATTCGTCGCTACG
AGCGGACAGGTCTTTCACTTTTGAGGATTTGCTGGTTTTGGTTTTGGATG
GCTTGTGGGATGGGGAAGGAATGACAGCTGGTATCGGGGACACGGCGGAT
GGGGCCTTGAAGGTTGAGTCCATGATGCTGAGGGTTGCACCCACATGGGG
GACAGCTGTGGTGTGGGACATGATGACCCGCGTGTTCGGGCATGCCCCTA
AATCTGCGTCTGAAAGTATGGGTGATGTCTTTATGTCAAAAGAGTGATTC
TCGAGTTGATGGGACCTTAAGCATATTTCCTCCCN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no539_n19.b1 MSMg01no539_n19.b1 CHROMAT_FILE:
MSMg01no539_n19.b1 PHD_FILE: MSMg01no539_n19.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:18:58 2005
         (577 letters)



>mm_chr12_33888941_33889917
          Length = 977

 Score = 1094 bits (566), Expect = 0.0
 Identities = 572/574 (99%)
 Strand = Plus / Plus

                                                                       
Query: 4   gaattctctttgttcacctgactgctgagtggagaaattcagaagagagatccgagttgt 63
           |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 204 gaattctctttgctcacctgactgctgagtggagaaattcagaagagagatccgagttgt 263

                                                                       
Query: 64  ctccagtggatctgctgagacagggcccacggcaggcctggtgattctaatgggtgacct 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264 ctccagtggatctgctgagacagggcccacggcaggcctggtgattctaatgggtgacct 323

                                                                       
Query: 124 tctaaacaccatctgcggcgtgtgagctggggttatgtgagctactggtctcaagtttag 183
           ||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 324 tctaaacaccatctgcggcgtgtgagctggggttatgtgagctacaggtctcaagtttag 383

                                                                       
Query: 184 ctggccaggcctgaactcagagtaaaactccatgtggtacctctgcccacgggttctagg 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 384 ctggccaggcctgaactcagagtaaaactccatgtggtacctctgcccacgggttctagg 443

                                                                       
Query: 244 ttgcatctgaggtctgaggctattatgcagccctcagaacaggattgtttgcccagtggt 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 444 ttgcatctgaggtctgaggctattatgcagccctcagaacaggattgtttgcccagtggt 503

                                                                       
Query: 304 ggtgaaggattggcctgaagcatccacactttggatcctggaattatttgccagatggcc 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 504 ggtgaaggattggcctgaagcatccacactttggatcctggaattatttgccagatggcc 563

                                                                       
Query: 364 agccaagcaccgagcactgggattagtgtttgaccatagagcacaaagggggttttctct 423
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 564 agccaagcaccgagcactgggattagtgtttgaccatagagcacaaagggggttttctct 623

                                                                       
Query: 424 tgagccaagaggtgagtatacaaatggcaggacattgctagcatcctattttaggtagat 483
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 624 tgagccaagaggtgagtatacaaatggcaggacattgctagcatcctattttaggtagat 683

                                                                       
Query: 484 ttttcagaaactaggtttttactagccccaaaccacccaaggccctaactataataccct 543
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 684 ttttcagaaactaggtttttactagccccaaaccacccaaggccctaactataataccct 743

                                             
Query: 544 ggaccctatttcagcacagaacatctctaccaga 577
           ||||||||||||||||||||||||||||||||||
Sbjct: 744 ggaccctatttcagcacagaacatctctaccaga 777


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: 28
Number of extensions: 1
Number of successful extensions: 1
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 577
Length of database: 977
Length adjustment: 10
Effective length of query: 567
Effective length of database: 967
Effective search space:   548289
Effective search space used:   548289
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)

Query= MSMg01no539_n19.g1 MSMg01no539_n19.g1 CHROMAT_FILE:
MSMg01no539_n19.g1 PHD_FILE: MSMg01no539_n19.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:18:58 2005
         (549 letters)



>mm_chr12_34051901_34052849
          Length = 949

 Score = 1054 bits (545), Expect = 0.0
 Identities = 548/549 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   ttacgcttttttccttctgatttgtcaaaggagaggggcagagaagacacagcgttgtgt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 749 ttacgcttttttccttctgatttgtcaaaggagaggggcagagaagacacagcgttgtgt 690

                                                                       
Query: 61  gaggccagagagaggtcccctgcatggagtgcaagggagggcacggagaggggacagggg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 689 gaggccagagagaggtcccctgcatggagtgcaagggagggcacggagaggggacagggg 630

                                                                       
Query: 121 ccactgctgccacccacggcgcccacctgtctcactatgtccatggggccgctgggcagt 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 629 ccactgctgccacccacggcgcccacctgtctcactatgtccatggggccgctgggcagt 570

                                                                       
Query: 181 gaggtccgtcctgagggctccagcttggcactgagtgggctcaccccgttatttgagttg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 569 gaggtccgtcctgagggctccagcttggcactgagtgggctcaccccgttatttgagttg 510

                                                                       
Query: 241 tgcacagacagactgttatagggaggggctgcctgataggagttcaaagcagaactggca 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 509 tgcacagacagactgttatagggaggggctgcctgataggagttcaaagcagaactggca 450

                                                                       
Query: 301 ttcagaatgcagttctttttgtggggccctgacaatggagacgagaggggagcctgcaag 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 449 ttcagaatgcagttctttttgtggggccctgacaatggagacgagaggggagcctgcaag 390

                                                                       
Query: 361 gataaggaggaggcggaagtggaggactgcggcttcctctttttgttacttggagattcg 420
           |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 389 gataaggaggaggcagaagtggaggactgcggcttcctctttttgttacttggagattcg 330

                                                                       
Query: 421 tcgctacgagcggacaggtctttcacttttgaggatttgctggttttggttttggatggc 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 329 tcgctacgagcggacaggtctttcacttttgaggatttgctggttttggttttggatggc 270

                                                                       
Query: 481 ttgtgggatggggaaggaatgacagctggtatcggggacacggcggatggggccttgaag 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 269 ttgtgggatggggaaggaatgacagctggtatcggggacacggcggatggggccttgaag 210

                    
Query: 541 gttgagtcc 549
           |||||||||
Sbjct: 209 gttgagtcc 201


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: 28
Number of extensions: 2
Number of successful extensions: 1
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 549
Length of database: 949
Length adjustment: 10
Effective length of query: 539
Effective length of database: 939
Effective search space:   506121
Effective search space used:   506121
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)


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