BAC Information

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BAC

Clone NameMSMg01-341M13
Chromosome9 (Build37)
Map Location 56,599,123 - 56,794,147
singlet/doubletdoublet
Overlap geneOdf3l1, Cspg4, Sh3px3, Imp3
Upstream geneZfp291, LOC664980, 4930563M21Rik, LOC664995, LOC665005, Rcn2, Pstpip1, Tspan3, C230081A13Rik, Hmg20a, LOC100039535, LOC100039549, LOC640537, Lingo1
Downstream geneSnupn, Ptpn9, 2700012I20Rik, Sin3a, Man2c1, Neil1, Commd4, 1700041C23Rik, Trcg1, 1700017B05Rik, EG330948, Ppcdc, Scamp5, D9Wsu149, LOC620603, Rpp25, Cox5a, 2310046O06Rik, Mpi1, Scamp2, Ulk3, Cplx3, Lman1l, Csk, Cyp1a2, Cyp1a1, Edc3, Clk3, Arid3b, LOC665235, LOC677423, LOC100039509, Ubl7, Sema7a
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-341M13.T7 (MSMg01no341_m13.b1)MSMg01-341M13.TJ (MSMg01no341_m13.g1)
ACCAG455494AG455495
length778777
length of high quality
(start - end)
410 (64 - 473)325 (72 - 396)
definitionCHROMAT_FILE: MSMg01no341_m13.b1 PHD_FILE: MSMg01no341_m13.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:31:07 2005CHROMAT_FILE: MSMg01no341_m13.g1 PHD_FILE: MSMg01no341_m13.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:31:07 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(56,793,802 - 56,794,147)(56,599,123 - 56,599,447)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCTTT
GTTTATCTCTGAGCCCCATTTTTTTTAATGGGGTTATTTGATTTTCTGGA
GTCCACCTTCTTGAGTTCTTTATATATATTGGCATATATACCTTTTAAAA
AAAACTTAACAAAGAAAAATTCTAACTAACTGAAAGTGCTTGGACCCACC
CAGCTTTAGTCTTTATTTTGAGACAGGGTCTGGCTCTGTAGCCTATGCTG
ACCTCAAACTCTGAGCAGCCTTCCTGGCTCCACATCCCAATAGCTGGGAT
TACAGGTGTATTCTACCACACCTGGCTTCAGCTTTGACATTTATAAAATC
GGGGAAATCTATAATATGTAGCCTAGAGCCTATCACAAGAGTGACATCCC
TTTCCTATTCCATACTTTGCATTTCAAGTAAGCCTGATCAACCCTGTCTT
GTACTGGGGGATAAGGGAGAAGGTTAGACTGACGGTTAAAATCTCTTGCT
AGCCCGATATGACCCAATTGGCCACCCTTAAATTAACCCATGAATCCCAT
CTTGGTAGTTATTAAAGTCTCTTCTAACCCCCCCTGGTTTTTTAACCATC
CGCCGCATACCGTATACCCCTTTTTTACTCCTTTTCCCTTAACTTTTAAA
ATACCCTGCGAGTCGTTTACCCCACCCCCTCCTTCTCCGTGCTTTCTTTT
TTCTCTTTCCGCCTCCTAATTCTTCTCCATTCCTTCGCTTTTATCACAAA
TATCACCCCTTCCTTTTCTCACCCGCTN
TGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXTATACCCAGCCAGACTATCAGCCATGATG
CGAGACATAACAAAGACTTCCAAGTAACATGTCTCCTATGCAATACCTTT
AGGAACTATTAAGAAGAACACATTCAGTCCAGGAAGCCTGAGATCCAAGA
AGAGACCTGATATCTAAATCCAAACTGGAGCAAGTCGAAAGGTACTTTCT
CAAGAAGATAAAACCAGCCATACCCAGTGGCTTATACTGGTTATCCCAGT
ACTCAGGAGGCAGGAAGATTTCAAATTCAAAGACAACCTACATTACACAG
TAAGACCTGGCCTGAAGTGGAAAAGGAAAAAAGGGGGAGGGGTGATAAAA
ATCCTTTGTGTGTCTAGTTACACTGAGAGTAGGCTCACCCATAGGCAAAT
TGGGAAGAATTATTCCTGTGCCTACAGCCATCTTTCCTCCCTTGCAAATC
AACCCGGGTTATCTTTATTCCTCATAGCCTTTCCTTTCCTGTTAATCCCC
CCACTGTTCTTTTGCGTGTTCTTTCCTATTCCTTTCCCCCCTCTTTTCCC
TTTTCGTTTTTTTCCCTCTCCGTTCCATTCGTTCCGCCTCTTTTTCTTTT
TCTTTCCCTCTTTTTCCTTCTTTTTTCCCTTTTTCTTCTTTTATTCTCCC
CCTTTTCCCCCCCTTTTTTCCCCTTGCTTTTTTCCCTTTCCTTTCGCTTT
CCTTTTTTCCCCTCTTCGCTCTTCAAC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no341_m13.b1 MSMg01no341_m13.b1 CHROMAT_FILE:
MSMg01no341_m13.b1 PHD_FILE: MSMg01no341_m13.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:31:07 2005
         (410 letters)



>mm_chr9_56793338_56794147
          Length = 810

 Score =  590 bits (305), Expect = e-173
 Identities = 336/347 (96%), Gaps = 4/347 (1%)
 Strand = Plus / Minus

                                                                       
Query: 67  tggcatatata-ccttttaaaaaaaacttaacaaagaaaaattctaactaactgaaagtg 125
           ||||||| ||| |||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 810 tggcatacataccctttt-aaaaaaacttaacaaagaaaaattctaactaactgaaagtg 752

                                                                       
Query: 126 cttggacccacccagctttagtc--tttattttgagacagggtctggctctgtagcctat 183
           |||||||||||||||||||||||  |||||||||||||||||||||||||||||||||||
Sbjct: 751 cttggacccacccagctttagtctttttattttgagacagggtctggctctgtagcctat 692

                                                                       
Query: 184 gctgacctcaaactctgagcagccttcctggctccacatcccaatagctgggattacagg 243
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 691 gctgacctcaaactctgagcagccttcctgcctccacatcccaatagctgggattacagg 632

                                                                       
Query: 244 tgtattctaccacacctggcttcagctttgacatttataaaatcggggaaatctataata 303
           ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 631 tgtatgctaccacacctggcttcagctttgacatttataaaatcggggaaatctataata 572

                                                                       
Query: 304 tgtagcctagagcctatcacaagagtgacatccctttcctattccatactttgcatttca 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 571 tgtagcctagagcctatcacaagagtgacatccctttcctattccatactttgcatttca 512

                                                          
Query: 364 agtaagcctgatcaaccctgtcttgtactgggggataagggagaagg 410
           ||| ||||||| ||| |||| ||||||||||||||||||||||||||
Sbjct: 511 agtgagcctgaccaatcctgccttgtactgggggataagggagaagg 465


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: 14
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: 410
Length of database: 810
Length adjustment: 9
Effective length of query: 401
Effective length of database: 801
Effective search space:   321201
Effective search space used:   321201
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= MSMg01no341_m13.g1 MSMg01no341_m13.g1 CHROMAT_FILE:
MSMg01no341_m13.g1 PHD_FILE: MSMg01no341_m13.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:31:07 2005
         (325 letters)



>mm_chr9_56598923_56599647
          Length = 725

 Score =  567 bits (293), Expect = e-166
 Identities = 317/325 (97%)
 Strand = Plus / Plus

                                                                       
Query: 1   tatacccagccagactatcagccatgatgcgagacataacaaagacttccaagtaacatg 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 201 tatacccagccagactatcagccatgatgcgagacataacaaagacttccaagtagcatg 260

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

                                                                       
Query: 121 gatccaagaagagacctgatatctaaatccaaactggagcaagtcgaaaggtactttctc 180
           |||||||||||||||||||||||||||||||||||||||||||| | |||| ||||||||
Sbjct: 321 gatccaagaagagacctgatatctaaatccaaactggagcaagtagcaaggcactttctc 380

                                                                       
Query: 181 aagaagataaaaccagccatacccagtggcttatactggttatcccagtactcaggaggc 240
           |||||||||||||||||||||||||||||||||| ||||| |||||||||||||||||||
Sbjct: 381 aagaagataaaaccagccatacccagtggcttatgctggtcatcccagtactcaggaggc 440

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

                                    
Query: 301 aaaggaaaaaagggggaggggtgat 325
           |||| |||||| |||||||||||||
Sbjct: 501 aaagaaaaaaaaggggaggggtgat 525


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: 11
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: 325
Length of database: 725
Length adjustment: 9
Effective length of query: 316
Effective length of database: 716
Effective search space:   226256
Effective search space used:   226256
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)