BAC Information

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BAC

Clone NameMSMg01-400I09
Chromosome5 (Build37)
Map Location 147,890,612 - 148,052,110
singlet/doubletdoublet
Overlap geneRpo1-3, Gsh1
Upstream geneLOC100041449, LOC433961, EG622306, 1700001J03Rik, LOC667121, Rnf6, Cdk8, Wasf3, LOC623198, LOC622924, 4930449I24Rik, LOC100041548, LOC100041554, LOC100041566, LOC100041578, EG667172, Gpr12, Usp12, 1700041I07Rik, Rpl21, Rasl11a, LOC100039699, LOC627218, Gtf3a, Mtif3, Lnx2
Downstream genePdx1, Cdx2, EG231903, LOC622952, Flt3, Map1lc3-ps3, LOC384254, LOC100039805, Pan3, Flt1, LOC100039825, Pomp, Slc46a3, C130038G02Rik, LOC100041819
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-400I09.T7 (MSMg01no400_i09.b1)MSMg01-400I09.TJ (MSMg01no400_i09.g1)
ACCAG500126AG500127
length793802
length of high quality
(start - end)
237 (328 - 564)242 (73 - 314)
definitionCHROMAT_FILE: MSMg01no400_i09.b1 PHD_FILE: MSMg01no400_i09.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:13:52 2005CHROMAT_FILE: MSMg01no400_i09.g1 PHD_FILE: MSMg01no400_i09.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:13:52 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(147,890,612 - 147,890,858)(148,051,870 - 148,052,110)
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXCTATTTTCAGACATGCGCGGAAT
TCAGACCCGTTGCGCCACAATCAGCTGTTGAGCCGTTTCAGAAAGGCCTG
AATGAGCTCTTGAATGTCTGCCAGCATGTGCTTGTCAAGTTTGAGGCCAG
CATAAAGGACTATAAAGCTAAAAAGGCAAGCAAAAAGGAGCCCACATTCT
AGTCCCTCGTGCAGGGTACAAACAGGACCACCCTCAGGATGGTGCAGAAC
CCTGAATTGTGATTGCAGCATGTTCTGTCCTGTAGGAAAGAAAATGTGGC
TCTAGCTATTGACCCATACTGTTGTTGGAATCTCTGCAAGTATATTTGCC
TAATAAATTCTCTCTTTTGTTTAAACTAGTTTTGAGTGGTTTCTCTTCCT
TGAACCTAGATGAACCCCAAGGATGGTGTCACCCTCTTAATTGAACCAAC
ACTAAAAGTGAGCAAACAGATAATTGGGCCAAGGTTTTGATCATAGATTT
TTTTTTTTTTGAGACAGGGTTTCTCTGTGTAGCCCTGGAACTCACTCTGT
AGACCAGGCTGGCCTCAAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAG
TGCTGGGCTTAAAGGCGTGTACCACCACGCCCCAGTTTGATTACAGCTTC
TTAAAGAGTTTCTTTTTATACTGATTGAGGTGTCACAGGAAAGGATAGGT
GCACTATAAACGAGACCCCATGCATACTGTTTTTTAAAAAAGTTTTGTTT
ATAATAAACTGGTTCCACGTATTTTTTAATTCCTTTTCTCTCT
ATGATAGTCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXTACAGAAATCCCAGGCTGGCCTGGGCTACAGAGTAAGATC
TTATCTCAATCCACCTCAGCACGTGAGGCTACTTTTTCAAGGCTTGTGAC
ACTAAAGAACAACCTCTCTTTTTTTCTTCCTCTTTGCTTGTTTTTGGTCA
GGGCATGTACTGGGGCTGGGTCCCAGAGCCTTGAGTGAGGTGCCGCTCAT
CTCTGTAGCACACTGGAGAGATTCCATCAGTCAGGAAGGGTCTGAGTGAG
AGAGGAAAAATGGGGATTAAGTGACATGAGGGNGAGCCNGCGACCGGGAC
AAAGNNGTTTTTTTCTCACCCCCCCTGAGACGAGTGGCTGCGCTTGCTGT
AGGTGACCAGGCACCCCCCTATTTTTTTTAAAGTATCGCACCCCCAACTT
TTAAGAGGTTTTTATTGATGCATAGTCATTGATTCTGCCTCTTAGAATTT
AATACTATTTCTGCCTTTAATGTACGTATTCACCCTATGTTTTGTGCATG
TTTTCCTACCTTTCCCTATTTGAAGGTTTATATATTTCCTTCCTTTTACG
TTTAGTTATACACTGTTCTTCTTCTCACCTCTTCTTCCCCATGTAATTCT
TCACTGAGTCCCATTTTTTTTTTTTTTTTTTTTCTCCGATCAAATAGACT
TTAGAACCTATCACCTTTTTTCCTCTCTCCTTCCCTTTCCCCACTTTTCT
CGTCTTCCATTCTCCTCCTCATTTTATTTGTCTATTTATCTCTCTTCTCT
TT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no400_i09.b1 MSMg01no400_i09.b1 CHROMAT_FILE:
MSMg01no400_i09.b1 PHD_FILE: MSMg01no400_i09.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:13:52 2005
         (237 letters)



>mm_chr5_147890412_147891048
          Length = 637

 Score =  431 bits (223), Expect = e-125
 Identities = 237/247 (95%), Gaps = 10/247 (4%)
 Strand = Plus / Plus

                                                                       
Query: 1   gaatctctgcaagtatatttgcctaataaattctctcttttgtttaaactagttttgagt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 gaatctctgcaagtatatttgcctaataaattctctcttttgtttaaactagttttgagt 260

                                                                       
Query: 61  ggtttctcttccttgaacctagatgaaccccaaggatggtgtcaccctcttaattgaacc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 ggtttctcttccttgaacctagatgaaccccaaggatggtgtcaccctcttaattgaacc 320

                                                                       
Query: 121 aacactaaaagtgagcaaacagataattgggccaaggt------tttgatcatagatttt 174
           ||||||||||||||||||||||||||||||||||||||      ||||||||||||||||
Sbjct: 321 aacactaaaagtgagcaaacagataattgggccaaggtaggggttttgatcatagatttt 380

                                                                       
Query: 175 ttttttttt----gagacagggtttctctgtgtagccctggaactcactctgtagaccag 230
           |||||||||    |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 tttttttttttttgagacagggtttctctgtgtagccctggaactcactctgtagaccag 440

                  
Query: 231 gctggcc 237
           |||||||
Sbjct: 441 gctggcc 447


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: 15
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: 237
Length of database: 637
Length adjustment: 9
Effective length of query: 228
Effective length of database: 628
Effective search space:   143184
Effective search space used:   143184
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= MSMg01no400_i09.g1 MSMg01no400_i09.g1 CHROMAT_FILE:
MSMg01no400_i09.g1 PHD_FILE: MSMg01no400_i09.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:13:52 2005
         (242 letters)



>mm_chr5_148051626_148052266
          Length = 641

 Score =  391 bits (202), Expect = e-113
 Identities = 232/242 (95%), Gaps = 1/242 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   aggctggcctgggctacagagtaagatcttatctcaatccacctcagcacgtgaggctac 60
           ||||||||||||||||||||||||||||||||||||||| ||| ||||| ||||||||||
Sbjct: 485 aggctggcctgggctacagagtaagatcttatctcaatctaccacagcatgtgaggctac 426

                                                                       
Query: 61  tttttcaaggcttgtgacactaaagaacaacctctctttttttcttcctctttgcttgtt 120
           |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 425 tttttcaaggcttgtgaccctaaagaacaacctctctttttttcttcctctttgcttgtt 366

                                                                       
Query: 121 tttggtcagggcatgtactggggctgggtcccagagccttgagtgaggtgccgctcatct 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||| ||||| | 
Sbjct: 365 tttggtcagggcatgtactggggctgggtcccagagccttgagtgaggtgctgctcacc- 307

                                                                       
Query: 181 ctgtagcacactggagagattccatcagtcaggaagggtctgagtgagagaggaaaaatg 240
           ||| ||||||||||||| ||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 306 ctggagcacactggagacattccatcagtcaggaagggtctgagtgaaagaggaaaaatg 247

             
Query: 241 gg 242
           ||
Sbjct: 246 gg 245


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: 10
Number of extensions: 2
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: 242
Length of database: 641
Length adjustment: 9
Effective length of query: 233
Effective length of database: 632
Effective search space:   147256
Effective search space used:   147256
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)