BAC Information

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BAC

Clone NameMSMg01-278C02
Chromosome9 (Build37)
Map Location 71,303,594 - 71,484,033
singlet/doubletdoublet
Overlap geneGrinl1a, AA407270, LOC547043, LOC100040537, Cgnl1
Upstream geneRnf111, Sltm, B230380D07Rik, Adam10, Cycs-ps1, Lipc, LOC100041622, LOC100041628, Aqp9, 1700020I22Rik, LOC100041660, Aldh1a2
Downstream geneTcf12, EG666001, LOC665959, EG665964, LOC665970, Suhw4, LOC100041760, Mns1, LOC666007, Tex9, 4930509E16Rik, Rfxdc2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-278C02.T7 (MSMg01no278_c02.b1)MSMg01-278C02.TJ (MSMg01no278_c02.g1)
ACCAG415840AG415841
length828843
length of high quality
(start - end)
311 (130 - 440)282 (132 - 413)
definitionCHROMAT_FILE: MSMg01no278_c02.b1 PHD_FILE: MSMg01no278_c02.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:18:22 2005CHROMAT_FILE: MSMg01no278_c02.g1 PHD_FILE: MSMg01no278_c02.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:18:22 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(71,483,723 - 71,484,033)(71,303,594 - 71,303,875)
sequence
AAAAAAAAAAATAATTNNANNANATCCACCCCGCTCTCCCTTCCAANTTT
TTTCTCTAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCCAAAGAGGATTN
GNGGAATTCCTTGTTTTCCCCACAAGGGAGATTTATTTTAGAGCATAACG
CTGGTTTTTAGAAGCATGGAGGGGACGCTATTGTGTTTTCCAAAAGACTC
AGAAACATGGCCTGCCTGGCTACTGTCACTGTTGGGTTTTTATGGCTGCC
TCCTATTCCTTCCTGTTTTCCTGATTTATTTTATACTTCCAAGTTAAGAG
CCCTCTTTTGAGAGGTTGTGGTGGGGTATGAAATGTTACGCGTTTTTTTG
CTTTTGCTTTTCTGTTGCCCTGAATCTCTCCAGGGAGGGCTTGAACCTGA
AGAGACCCTCAGAGATGTCTCTTGCTTAGAGTTCTGCCACTGGGGAGGTC
TGTTTTCTGCGAGAGGCTATAAGCTGCATGGTCTACGCTCTGGGATCTTG
CCCTGTGACTGTGGTAGTCCTTCATGCCCCACGGCTATCTTATTTTAACC
CTCTTGTAGACTTTTTCCTCGCACCTCTACCGAATTTCCCCCCCAACACT
CTGCTTTCCTGTTCGGCTTTTTCCCTAGTCAAAGCTTCAAACCCTGGCTG
AATTCAGAGGGCCCTTCTGGAGAAAATGCCTTGGGTTCTCGGCCCCCCAC
CAGAGTGGTTTCTTTGCCATAAATTTCCTGGTGTTAAAAAACCCCCCGGC
GTGGTTTCCCCATTCTTGGATTTCGCATCTTAGAGCCCCCAATTCCCGGA
ACCTCTCCCTCAATCGCGAAACCAATCG
NTTTTNNNNNTTTTAAAATTTTNTTCTATTTTTTATTCTTTCGTTTTTTN
CTCCTCAATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCCAGTGAAATCTAAAAGGA
CATGGATGTGGAAGTAAGTACACATATGCTTCCAATATGCCATTTTTCCG
TGTTACATTTGGAGAACGTTTAGCAGCAACCACAAGATTGGAACCTTGAA
CTTAAGAACATGTCTGGGAATGTGTGAGTCAGGATTCCCTAAGCCACACA
TCACAGCTTCCATAAACTGACCTTCAGAGCAGATCTAGAAGGTTTGAAGG
TCAAAGAGAGGGGTCAGAGATGCTATTCTGAGCATTTCTCACTCTTGCAC
AAAGGAAATGTTATTAATAGCTTCTCGGGTACGGNCCCACCTCTACTGCA
AAGCCCGAACGCGCTCTCTCTCTCTCTCAAAAAAAAAAAAAAATCTCTCT
AGCGTGGGCGCTCTCTCTCTCTCTCTTCCTCTTTCTCTCACAAACTGCAG
CCCTTATTAGACCATACTGTAATTTTATGAAAGATTATGTAATACTCTCT
AATAATGGTAATTTTACATTTCCTAAATTGAGCTAGTTTGAAAAAAAAAG
ATAAATTATAAAAATGACAATTTCAACACACATTCACGGAGATGGCTTTT
TGCACCTTTTATAAAACGCTAGTAATTATACCACTCCTCTCTCTTGCCAG
TCACTTTGTATCGTTATTCATGCTTATAACACTCGAAGGGTGACACTATA
CCGGAACACTTTAACACTACATACTTATTTATTATTCTCATAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no278_c02.b1 MSMg01no278_c02.b1 CHROMAT_FILE:
MSMg01no278_c02.b1 PHD_FILE: MSMg01no278_c02.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:18:22 2005
         (311 letters)



>mm_chr9_71483523_71484233
          Length = 711

 Score =  540 bits (279), Expect = e-158
 Identities = 303/311 (97%)
 Strand = Plus / Minus

                                                                       
Query: 1   gatttattttagagcataacgctggtttttagaagcatggaggggacgctattgtgtttt 60
           |||||||||||||| ||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 511 gatttattttagagaataacgctggtttttagaagcatggaggggaagctattgtgtttt 452

                                                                       
Query: 61  ccaaaagactcagaaacatggcctgcctggctactgtcactgttgggtttttatggctgc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 451 ccaaaagactcagaaacatggcctgcctggctactgtcactgttgggtttttatggctgc 392

                                                                       
Query: 121 ctcctattccttcctgttttcctgatttattttatacttccaagttaagagccctctttt 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 391 ctcctattccttcctgttttcctgatttattttatacttccaagttaagagccctctttt 332

                                                                       
Query: 181 gagaggttgtggtggggtatgaaatgttacgcgtttttttgcttttgcttttctgttgcc 240
           ||||||||||||||||||||||||||||| |  |||||||| ||||| ||||||||||||
Sbjct: 331 gagaggttgtggtggggtatgaaatgttatgattttttttgtttttgtttttctgttgcc 272

                                                                       
Query: 241 ctgaatctctccagggagggcttgaacctgaagagaccctcagagatgtctcttgcttag 300
           ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 271 ctgaagctctccagggagggcttgaacctgaagagaccctcagagatgtctcttgcttag 212

                      
Query: 301 agttctgccac 311
           |||||||||||
Sbjct: 211 agttctgccac 201


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: 311
Length of database: 711
Length adjustment: 9
Effective length of query: 302
Effective length of database: 702
Effective search space:   212004
Effective search space used:   212004
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= MSMg01no278_c02.g1 MSMg01no278_c02.g1 CHROMAT_FILE:
MSMg01no278_c02.g1 PHD_FILE: MSMg01no278_c02.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:18:22 2005
         (282 letters)



>mm_chr9_71303394_71304075
          Length = 682

 Score =  538 bits (278), Expect = e-157
 Identities = 281/282 (99%)
 Strand = Plus / Plus

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

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

                                                                       
Query: 121 ttaagaacatgtctgggaatgtgtgagtcaggattccctaagccacacatcacagcttcc 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 ttaagaacatgtctgggaatgtgtgagtcaggattccctaagccacacatcacagcttcc 380

                                                                       
Query: 181 ataaactgaccttcagagcagatctagaaggtttgaaggtcaaagagaggggtcagagat 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 ataaactgaccttcagagcagatctagaaggtttgaaggtcaaagagaggggtcagagat 440

                                                     
Query: 241 gctattctgagcatttctcactcttgcacaaaggaaatgtta 282
           |||| |||||||||||||||||||||||||||||||||||||
Sbjct: 441 gctaatctgagcatttctcactcttgcacaaaggaaatgtta 482


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: 282
Length of database: 682
Length adjustment: 9
Effective length of query: 273
Effective length of database: 673
Effective search space:   183729
Effective search space used:   183729
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)