BAC Information

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BAC

Clone NameMSMg01-277M08
Chromosome5 (Build37)
Map Location 52,902,302 - 53,053,959
singlet/doubletdoublet
Overlap geneLgi2, LOC545750, D5Ertd135e
Upstream genePpargc1a, Dhx15, Sod3, Gm447, LOC100041805
Downstream genePi4k2b, Zcchc4, Anapc4, Slc34a2, 2310045A20Rik, 1810013D10Rik, LOC100041198, LOC100041911, Rbpj
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-277M08.T7 (MSMg01no277_m08.b1)MSMg01-277M08.TJ (MSMg01no277_m08.g1)
ACCAG415578AG415579
length727729
length of high quality
(start - end)
315 (46 - 360)234 (128 - 361)
definitionCHROMAT_FILE: MSMg01no277_m08.b1 PHD_FILE: MSMg01no277_m08.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:17:58 2005CHROMAT_FILE: MSMg01no277_m08.g1 PHD_FILE: MSMg01no277_m08.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:17:58 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(53,053,651 - 53,053,959)(52,902,302 - 52,902,531)
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCTTTCTTTTGCCCACATACATATGAAAAAAAGTGCCTTTTGTAATC
TAAAGAATATAAGTATGTGTTCCACGCCTATTTTGTTTGTAGCAGAAGAC
ATTTTGGTATTGATTGTGAGTCAGGTGTATTGTGTGTGCTTGTGTGGGTG
CTTATGTGCATGACTGATTTTGGATGTCTTTTTCTATCACTTTGCACTTT
GTTGTTTTGAGGCAGGGCCTCTCACTGGAGCACCCTGTTTCAGTCAGCCT
GGCTGGCTCTTGAGCCGCTTAGTTTGTCGTGCCTTTGCCTGCCTAGTGCT
GGGATCTCTTTCTCATCTGCCACCGCCCGCCTCTGCTGGGATTCTGAGGG
ATTAACCTCAGGTCCTCATGCTTGCAAAGAAAGCACTGTACTGACTGAGT
AAGCCCTCTCTCCAGCCCTACAAAGGAGACATTTATTCATGTCTTAGTGT
CTATTGCTGTGAATAGACAGCATGATCATGGCAACTCTTACAAAGGAAAG
CTTTTAATTGGGGCTGGCTTATGATTTCAGAGGGTTTTTTTGTCTGTTTT
CTTCAGTGCAGGAAGCATAGTATCTCATAGATAGACATGGCACTGAAACA
GTAAGTTGAGAGTTCTAAGTCAAGATCTGCACACTTTATGAACATACTCT
GGGCCTGGCTTGTGCTTTTGTAGCCTN
CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXTTTCAGATCCTAGGTTCAAGTCCT
TGCTTTGAGAGGGGGTAATAAACCACGCTGCTGATCAGAGCCTCCAGCAG
GACGTTTTGGAGCAGGACATTTTGGGAGTTGCCGGATTCTGAGAGCCTGC
TGCTGAGAGTGAGGAGAGGAGCTCTCAGTGGGAAGGAAGGCTGTGTGCTT
GTTCACAGGTTATGTTGCCTGCCCAACCCCCTCCAGCTCTCTTGTGGGAA
GTGAAGGAGCCAGCTTTCCTTATTCCCAGGCTATGGGCTCACAATCTCCT
TCCCACGCTCCCTAATCCTTCACCCCCCCCCCCCTTCTTAAGCCCAGGCT
AGCAGCCAACTTGTAAACTCATGTGCTGATACCTCCCGAATGCTGTCATT
ACCAGTGTGTGCCTGTGCCTGGCTCAGGGCTGAGTGTTTGATCCATGACT
ACCACTAACTGCAGCGATTCCTTCAGAGGTCACTCAAGGCAGGCTGTGTT
TCATGTGTCCCCTCCTAAATACAGAGTTAGCAGTGTGATGGAAATAAGAG
GTATTAATGTCGCATGTCTTTAATCCCAGCATTTGGCAGGCAGAGGCAGG
TGGATTTCCTAGTTTGAGGTCAGCCTGGTCTACAGAGTGAATTCCAGGAC
CACAGGGGCTTTACCGAATAGCCCTGTCN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no277_m08.b1 MSMg01no277_m08.b1 CHROMAT_FILE:
MSMg01no277_m08.b1 PHD_FILE: MSMg01no277_m08.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:17:58 2005
         (315 letters)



>mm_chr5_53053625_53054339
          Length = 715

 Score =  551 bits (285), Expect = e-161
 Identities = 303/309 (98%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattctttcttttgcccacatacatatgaaaaaaagtgccttttgtaatctaaagaata 64
           ||||||||||||| |  |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 335 gaattctttctttggagcacatacatatgaaaaaaagtgccttttgtaatctaaagaata 276

                                                                       
Query: 65  taagtatgtgttccacgcctattttgtttgtagcagaagacattttggtattgattgtga 124
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 275 taagtatgtgttccaagcctattttgtttgtagcagaagacattttggtattgattgtga 216

                                                                       
Query: 125 gtcaggtgtattgtgtgtgcttgtgtgggtgcttatgtgcatgactgattttggatgtct 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 215 gtcaggtgtattgtgtgtgcttgtgtgggtgcttatgtgcatgactgattttggatgtct 156

                                                                       
Query: 185 ttttctatcactttgcactttgttgttttgaggcagggcctctcactggagcaccctgtt 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 155 ttttctatcactttgcactttgttgttttgaggcagggcctctcactggagcaccctgtt 96

                                                                       
Query: 245 tcagtcagcctggctggctcttgagccgcttagtttgtcgtgcctttgcctgcctagtgc 304
           |||||||||||||||||||||||||||||  |||||||||||||||||||||||||||||
Sbjct: 95  tcagtcagcctggctggctcttgagccgcagagtttgtcgtgcctttgcctgcctagtgc 36

                    
Query: 305 tgggatctc 313
           |||||||||
Sbjct: 35  tgggatctc 27


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: 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: 315
Length of database: 715
Length adjustment: 9
Effective length of query: 306
Effective length of database: 706
Effective search space:   216036
Effective search space used:   216036
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= MSMg01no277_m08.g1 MSMg01no277_m08.g1 CHROMAT_FILE:
MSMg01no277_m08.g1 PHD_FILE: MSMg01no277_m08.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:17:58 2005
         (234 letters)



>mm_chr5_52902098_52902731
          Length = 634

 Score =  437 bits (226), Expect = e-127
 Identities = 229/230 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   tgatcagagcctccagcaggacgttttggagcaggacattttgggagttgccggattctg 64
           |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 205 tgatcagagcctccagcaggacgttttggagcaggaaattttgggagttgccggattctg 264

                                                                       
Query: 65  agagcctgctgctgagagtgaggagaggagctctcagtgggaaggaaggctgtgtgcttg 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 agagcctgctgctgagagtgaggagaggagctctcagtgggaaggaaggctgtgtgcttg 324

                                                                       
Query: 125 ttcacaggttatgttgcctgcccaaccccctccagctctcttgtgggaagtgaaggagcc 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 ttcacaggttatgttgcctgcccaaccccctccagctctcttgtgggaagtgaaggagcc 384

                                                             
Query: 185 agctttccttattcccaggctatgggctcacaatctccttcccacgctcc 234
           ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 agctttccttattcccaggctatgggctcacaatctccttcccacgctcc 434


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: 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: 234
Length of database: 634
Length adjustment: 9
Effective length of query: 225
Effective length of database: 625
Effective search space:   140625
Effective search space used:   140625
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)