BAC Information

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BAC

Clone NameMSMg01-089D07
Chromosome3 (Build37)
Map Location 87,776,095 - 87,947,645
singlet/doubletdoublet
Overlap geneNes, Bcan, Hapln2, Gpatc4, Apoa1bp, Ttc24, Iqgap3, Mef2d
Upstream geneCd1d2, Cd1d1, LOC667897, Kirrel1, LOC100042355, Msr2, Cd5l, Fcrl1, Fcrl5, Etv3, EG546801, Arhgef11, EG625281, 3110045G13Rik, Ntrk1, Insrr, Sh2d2a, Prcc, Hdgf, Mrpl24, BC023814, Isg20l2, Crabp2, LOC100042242
Downstream geneAI849053, LOC100042271, LOC100042277, Rhbg, 1700021C14Rik, Cct3, 0610031J06Rik, Tmem79, Smg5, Paqr6, Bglap-rs1, Bglap2, LOC627995, Bglap1, Pmf1, Slc25a44, LOC667989, Sema4a, LOC546802, Lmna, 2700083E18Rik, Rab25, Mapbpip, Ubqln4, LOC545536, Ssr2, Arhgef2, Rxfp4, 2810403A07Rik, Rit1, Syt11, 5830417I10Rik, Msto1, Dap3, Ash1l, Rusc1, Fdps, LOC628070, Pklr
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-089D07.T7 (MSMg01no089_d07.b1)MSMg01-089D07.TJ (MSMg01no089_d07.g1)
ACCAG307765AG307766
length789772
length of high quality
(start - end)
276 (122 - 397)369 (147 - 515)
definitionCHROMAT_FILE: MSMg01no089_d07.b1 PHD_FILE: MSMg01no089_d07.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:41:56 2005CHROMAT_FILE: MSMg01no089_d07.g1 PHD_FILE: MSMg01no089_d07.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:41:56 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(87,947,374 - 87,947,645)(87,776,095 - 87,776,463)
sequence
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNCCCCGCANNNNNAGTATTATXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXCGCGGAATTCCCCAACCACCCTACATAAC
AAGGTTCTCAGCCACTCCCACAATCATCCCACCCCACCCCCATCCTGGAA
GACGCAGGAAGGAAATTCATTCACAGGCAAGGCCATGGGAGTTGGGACAG
CCAGGCTGAGCACTGGGGCTCGGTGGCCAGAGGCCAGAAGCTGGGTGTCT
GAGAACACTGTCAGGTAACTCGCCAATGCTCCCCTCGGCGGATACCTACC
GCGGATACAGGGAGACGAACAGAAGGAGGACAGCTCCCAAGGCCAAGTGT
ACTCAGTAGGCTCCTCTCCGAGATCCGGCCAGAGTTTTTTTTGGCCCCCC
CCCCCCACGGCAAACTTCCCACAGTCAGGTAGCTCAGATCCACTGAGGAC
ATAAAAATAGGGGGAAGATCCACCACTCACATTGCCCAACAGGTCTCGGA
CGAAACTCACACGGCTAGGGCACCGAGGAACGGGATCCACCCACTGTACT
CCCCTAGCCTGGCCCCAATGTGGCCGGCCAGCCGCACGCAGAACTGGCAT
CCAAGACAAGTTGACTAGCCCTGGGCCCCTGTGGAACTTCGAGGGGTCGA
AGGAATCCCCGGTAGGCCCCTCTGCCCCCTCTCTGAGGTGGAAGGTTGTT
AACCCAGGAGTCCCCTGGGATATTCACCCCAAACGAATC
TTTTTTTNTTNNNNTTNNNNNNNNNNNNNNNNNNTTNNNNTCCNNCCCCC
CCNNCCCCCCCCTTTTTTTTTTTCTATGATATGTGXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTGAG
ACCTCCTAGCACAGCCCCCTTGAAAGGCCCGCAGGCCAATACCCACTGTA
GCTGCTCCTTACTCTTTGAATGGCAACCCCTCTCTAGGGTGACTCCCTGT
GCCCTTCACTATGCAGTTGTCAATCAGAAGGTGCCCAACACATGCTCTCT
CCCCATCAGAAGGTTCCTAGCAACCATAGTGAAGGAAGGCGGTGTGAGCC
ACCGCAGACCACCAGCCCCTCTCTGTGTCAAGACTTCTCAGCTCCCTGAA
GCGCATTCCAAAGGCCTGGGGCACCCTCCCCCTCATATTGCACAGATGTG
ACCAACAGCTGAGAAAACAGCCTCTTGCCTGGTCCAGACAGAAGTCCCGA
CGTGACCACCTGCCCACTCTTCTTGGTGGAGAAGGATTCCAGAACACGTG
CGAAGTGGAGCGACCCAGCCTGCTATGAGGAGCCGGGGGCAGTGTCGACC
CAAGCTGCTTTCCTTCCAAGCCCCTCCGAGGGGACTCTTGAAAAATTGCT
TCCTTCCTTCTGTTCCCACTTTGCCTCCCTCCTTCCGCTGTGAAAACCAT
CTCCTCCCCTTTATTCCCATCTCCTCCCCTTTGTTACTATGGTTCCCCCA
TAACACGGCGTTTTCATTCAAC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no089_d07.b1 MSMg01no089_d07.b1 CHROMAT_FILE:
MSMg01no089_d07.b1 PHD_FILE: MSMg01no089_d07.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:41:56 2005
         (276 letters)



>mm_chr3_87947170_87947845
          Length = 676

 Score =  518 bits (268), Expect = e-151
 Identities = 271/272 (99%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattccccaaccaccctacataacaaggttctcagccactcccacaatcatcccacccc 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 476 gaattccccaaccaccctacataacaaggttctcagccactcccacaatcatcccacccc 417

                                                                       
Query: 65  acccccatcctggaagacgcaggaaggaaattcattcacaggcaaggccatgggagttgg 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 416 acccccatcctggaagacgcaggaaggaaattcattcacaggcaaggccatgggagttgg 357

                                                                       
Query: 125 gacagccaggctgagcactggggctcggtggccagaggccagaagctgggtgtctgagaa 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 356 gacagccaggctgagcactggggctcggtggccagaggccagaagctgggtgtctgagaa 297

                                                                       
Query: 185 cactgtcaggtaactcgccaatgctcccctcggcggatacctaccgcggatacagggaga 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 296 cactgtcaggtaactcgccaatgctcccctcggcggatacctaccgcggatacagggaga 237

                                           
Query: 245 cgaacagaaggaggacagctcccaaggccaag 276
           ||||||||||| ||||||||||||||||||||
Sbjct: 236 cgaacagaaggtggacagctcccaaggccaag 205


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: 13
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: 276
Length of database: 676
Length adjustment: 9
Effective length of query: 267
Effective length of database: 667
Effective search space:   178089
Effective search space used:   178089
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= MSMg01no089_d07.g1 MSMg01no089_d07.g1 CHROMAT_FILE:
MSMg01no089_d07.g1 PHD_FILE: MSMg01no089_d07.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:41:56 2005
         (369 letters)



>mm_chr3_87775895_87776663
          Length = 769

 Score =  675 bits (349), Expect = 0.0
 Identities = 364/369 (98%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  ccttactctttgaatggcaacccctctctagggtgactccctgtgcccttcactatgcag 120
           ||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 cctcactctttgaatggcaacccctctctagggtgactccctgtgcccttcactatgcag 320

                                                                       
Query: 121 ttgtcaatcagaaggtgcccaacacatgctctctccccatcagaaggttcctagcaacca 180
           ||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 321 ttgtcaatcagaaggtgcccaacacatgctctctccccaccagaaggttcctagcaacca 380

                                                                       
Query: 181 tagtgaaggaaggcggtgtgagccaccgcagaccaccagcccctctctgtgtcaagactt 240
           |||||||||||||| ||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 381 tagtgaaggaaggcagtgtgagccaccgcagaccaccagcccctctctgtgtcaaggctt 440

                                                                       
Query: 241 ctcagctccctgaagcgcattccaaaggcctggggcaccctccccctcatattgcacaga 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 ctcagctccctgaagcgcattccaaaggcctggggcaccctccccctcatattgcacaga 500

                                                                       
Query: 301 tgtgaccaacagctgagaaaacagcctcttgcctggtccagacagaagtcccgacgtgac 360
           |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 501 tgtgaccaacagctgagaaaacagcctcttgcctggcccagacagaagtcccgacgtgac 560

                    
Query: 361 cacctgccc 369
           |||||||||
Sbjct: 561 cacctgccc 569


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: 18
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: 369
Length of database: 769
Length adjustment: 9
Effective length of query: 360
Effective length of database: 760
Effective search space:   273600
Effective search space used:   273600
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)