BAC Information

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BAC

Clone NameMSMg01-436M05
Chromosome9 (Build37)
Map Location 56,927,101 - 57,126,898
singlet/doubletdoublet
Overlap geneSin3a, Man2c1, Neil1, Commd4, 1700041C23Rik, Trcg1, 1700017B05Rik
Upstream genePstpip1, Tspan3, C230081A13Rik, Hmg20a, LOC100039535, LOC100039549, LOC640537, Lingo1, Odf3l1, Cspg4, Sh3px3, Imp3, Snupn, Ptpn9, 2700012I20Rik
Downstream geneEG330948, Ppcdc, Scamp5, D9Wsu149, LOC620603, Rpp25, Cox5a, 2310046O06Rik, Mpi1, Scamp2, Ulk3, Cplx3, Lman1l, Csk, Cyp1a2, Cyp1a1, Edc3, Clk3, Arid3b, LOC665235, LOC677423, LOC100039509, Ubl7, Sema7a, Cyp11a1, 4930535E21Rik, Stra6, Islr, Islr2, LOC665268, Pml, Stoml1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-436M05.T7 (MSMg01no436_m05.b1)MSMg01-436M05.TJ (MSMg01no436_m05.g1)
ACCAG527753AG527754
length740735
length of high quality
(start - end)
455 (51 - 505)489 (79 - 567)
definitionCHROMAT_FILE: MSMg01no436_m05.b1 PHD_FILE: MSMg01no436_m05.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:01:55 2005CHROMAT_FILE: MSMg01no436_m05.g1 PHD_FILE: MSMg01no436_m05.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:01:56 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(56,927,101 - 56,927,553)(57,126,410 - 57,126,898)
sequence
NGGGCCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCAGAAATGCG
CGGAATTCAGAGGTTTTGCTCACGGTCTTCAGTAATCTAGTATAGTGTTT
TCCCCCCACTAAAAGTATGTCAAACTATATCTTTTGAATGTTCTTTTAAA
AAGTTAGTGTTTGAGCCGGTCGTGGTGGCGCACGCCTTTAATCCCAGCAC
CTGGGAGGCAAAGGCAGGCAGATTTCTGAGTTCGAGGCCAGCCTGGTCTA
CAGAGTGAGTTCCAGGACAGCCAGGGCGATACAGAGAAACCCTGTCTCAA
AAAAAGATAGTGCTTGGTTTTTCTTTTAATAGCTTCCCTTTTGTAATAAG
GGTTTATATTTATTGAACTTGGACTCTGCACCTGGTACTGCCAGGCACTG
CTCATTTGCTAATGTGTTTGATTGTATGTGCATGCATGTATGGATGGATG
TCTGTTAGTGGTATACACCCATGTAGCTTTGAAGTTTTGTGGCAGCTTTG
AGTTGTGGATTGGTGGGCTGCTCGTTTATCTGAACTTGCTCTGGAGCACA
GCCTGTCTATAACTCATCGATTCTCTTTTCTTGCCCTCAGCTAGGGTTAC
ATCTCTGTTTTGAAATGCACGCTTTACAAGTGAAGTTGGTTCATGATGTA
CTTTTTTCTTTGTGTAATGATTCCCGCTCCGCATTCGCTTAATAATATGT
TAGCATCCCAGCATTTCCTTGGGTTTATTAAATCGCTATT
TGGAGCAATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXAATTCGCTTGTGTCAGTTCAAC
AACTACCCCACGAGGTGTTACTAACTGCCGTCCACAAAGGAATCAAAACT
GAAGCACAGAGAGGTCAGTTGAACTTGGGCAAGGTCTCACAGCTAGACAG
GTAAAACAGATTGAAACCCGAGCCCTCTGGCATCAGCGCCTGTGCTCTTG
GAATGCTGGAGGAACCACATTGCTTCGTTCCCTTAACTGTCCCCTTACTA
ACAAGCTCGTGATAAACCGGGACTTGTGTTCATAATCAAAAGGTGTCAGA
GATTAACCTAAACACACGGAAAACTTATGAGGTGCTGAAGTAACCAAACT
CTTGAGAGAAGACGGGAAAACAACCAACATCCAGTATCTCTGGCTGTTCT
GGTAGTCACAGGGCACAGAGCATGGGGGCAGCTTGTTGAAAATGAGCCTC
AGTAGAAGGTGGCATTGACTGGCACCCATAGACTAGCAAGTCACCTAAGC
GGACGCTGAGATGGAGACACCTGGGCTGCTGAGGTAGGAGGGTGTGGGCT
GACTTGCCAGAAGTGAGAACGAAAGAGCATGCCCTTCACACAGGAAAACA
GAGAACTGTCTGGGGACAGAGGAACCCAGCAAGACGTCCGCAAGCTGTGT
CTGGTATGGGGCACATCATGACTGGAACCATATGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no436_m05.b1 MSMg01no436_m05.b1 CHROMAT_FILE:
MSMg01no436_m05.b1 PHD_FILE: MSMg01no436_m05.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:01:55 2005
         (455 letters)



>mm_chr9_56926899_56927753
          Length = 855

 Score =  814 bits (421), Expect = 0.0
 Identities = 445/453 (98%)
 Strand = Plus / Plus

                                                                       
Query: 3   gaattcagaggttttgctcacggtcttcagtaatctagtatagtgttttccccccactaa 62
           ||||||||||||| || |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 203 gaattcagaggttgtgttcacggtcttcagtaatctagtatagtgttttccccccactaa 262

                                                                       
Query: 63  aagtatgtcaaactatatcttttgaatgttcttttaaaaagttagtgtttgagccggtcg 122
           ||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 263 aagtatgtcaaactatatcttttgaatgttcttttaaaaagttagtgcttgagccggtcg 322

                                                                       
Query: 123 tggtggcgcacgcctttaatcccagcacctgggaggcaaaggcaggcagatttctgagtt 182
           ||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct: 323 tggtggcgcacgcctttaatcccagcacccgggaggcaaaggcaggcagatttctgagtt 382

                                                                       
Query: 183 cgaggccagcctggtctacagagtgagttccaggacagccagggcgatacagagaaaccc 242
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 383 cgaggccagcctggtctacagagtgagttccaggacagccagggcgatacagagaaaccc 442

                                                                       
Query: 243 tgtctcaaaaaaagatagtgcttggtttttcttttaatagcttcccttttgtaataaggg 302
           |||||||||||||||||||||||||||||||   ||||||||||||||||||||||||||
Sbjct: 443 tgtctcaaaaaaagatagtgcttggtttttcaaataatagcttcccttttgtaataaggg 502

                                                                       
Query: 303 tttatatttattgaacttggactctgcacctggtactgccaggcactgctcatttgctaa 362
           |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct: 503 tttatatttattgaacttggactctgcacctggtactgccaggcactgctcattcgctaa 562

                                                                       
Query: 363 tgtgtttgattgtatgtgcatgcatgtatggatggatgtctgttagtggtatacacccat 422
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 563 tgtgtttgattgtatgtgcatgcatgtatggatggatgtctgttagtggtatacacccat 622

                                            
Query: 423 gtagctttgaagttttgtggcagctttgagttg 455
           |||||||||||||||||||||||||||||||||
Sbjct: 623 gtagctttgaagttttgtggcagctttgagttg 655


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: 20
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: 455
Length of database: 855
Length adjustment: 10
Effective length of query: 445
Effective length of database: 845
Effective search space:   376025
Effective search space used:   376025
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= MSMg01no436_m05.g1 MSMg01no436_m05.g1 CHROMAT_FILE:
MSMg01no436_m05.g1 PHD_FILE: MSMg01no436_m05.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:01:56 2005
         (489 letters)



>mm_chr9_57126039_57126927
          Length = 889

 Score =  891 bits (461), Expect = 0.0
 Identities = 482/489 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   aattcgcttgtgtcagttcaacaactaccccacgaggtgttactaactgccgtccacaaa 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 860 aattcgcttgtgtcagttcaacaactaccccacgaggtgttactaactgccgtccacaaa 801

                                                                       
Query: 61  ggaatcaaaactgaagcacagagaggtcagttgaacttgggcaaggtctcacagctagac 120
           ||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 800 ggaatcaaaactgaagcacagagaggtcagttgaacttgggcaagttctcacagctagac 741

                                                                       
Query: 121 aggtaaaacagattgaaacccgagccctctggcatcagcgcctgtgctcttggaatgctg 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 740 aggtaaaacagattgaaacccgagccctctggcatcagcgcctgtgctcttggaatgctg 681

                                                                       
Query: 181 gaggaaccacattgcttcgttcccttaactgtccccttactaacaagctcgtgataaacc 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 680 gaggaaccacattgcttcgttcccttaactgtccccttactaacaagctcgtgatcaacc 621

                                                                       
Query: 241 gggacttgtgttcataatcaaaaggtgtcagagattaacctaaacacacggaaaacttat 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 620 gggacttgtgttcataatcaaaaggtgtcagagattaacctaaacacacggaaaacttat 561

                                                                       
Query: 301 gaggtgctgaagtaaccaaactcttgagagaagacgggaaaacaaccaacatccagtatc 360
           |||||||  |||| ||||||||| |||||||||||||| |||||||||||||||||||||
Sbjct: 560 gaggtgcaaaagtgaccaaactcatgagagaagacggggaaacaaccaacatccagtatc 501

                                                                       
Query: 361 tctggctgttctggtagtcacagggcacagagcatgggggcagcttgttgaaaatgagcc 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 500 tctggctgttctggtagtcacagggcacagagcatgggggcagcttgttgaaaatgagcc 441

                                                                       
Query: 421 tcagtagaaggtggcattgactggcacccatagactagcaagtcacctaagcggacgctg 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 440 tcagtagaaggtggcattgactggcacccatagactagcaagtcacctaagcggacgctg 381

                    
Query: 481 agatggaga 489
           |||||||||
Sbjct: 380 agatggaga 372


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: 23
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: 489
Length of database: 889
Length adjustment: 10
Effective length of query: 479
Effective length of database: 879
Effective search space:   421041
Effective search space used:   421041
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)