BAC Information

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BAC

Clone NameMSMg01-296A17
Chromosome9 (Build37)9 (Build37)
Map Location 45,306,949 - 45,307,23545,306,701 - 45,307,235
singlet/doubletsingletsinglet
Overlap geneDscaml1
Upstream geneBcl9l, Blr1, Ddx6, LOC667406, LOC100042660, Treh, Phldb1, Arcn1, 1500035H01Rik, Tmem25, BC021608, Mll1, Atp5l, Ube4a, Cd3g, Cd3d, Cd3e, Eva1, A530065I17Rik, Amica1, Scn2b, Scn4b, Tmprss4, Il10ra, Tmprss13, Fxyd6, Fxyd2
Downstream geneCep164, LOC640094, Bace1, Rnf214, Pcsk7, Tagln, Sidt2, Pafah1b2, 2610005M20Rik, BC033915, Apoa1, Apoc3, Apoa4, Apoa5, Zfp259, Bud13, 4931429L15Rik, LOC100042722
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-296A17.T7 (MSMg01no296_a17.b1)MSMg01-296A17.TJ (MSMg01no296_a17.g1)
ACCAG423764AG423765
length752737
length of high quality
(start - end)		288 (75 - 362)535 (77 - 611)
definitionCHROMAT_FILE: MSMg01no296_a17.b1 PHD_FILE: MSMg01no296_a17.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:32:08 2005CHROMAT_FILE: MSMg01no296_a17.g1 PHD_FILE: MSMg01no296_a17.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:32:08 2005
singlet/doubletsingletsinglet
BLAST hituniqueunique
Map location.(45,306,949 - 45,307,235)(45,306,701 - 45,307,235)
sequence
CGATGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXTCCCCACTGAGCCTGAATTCAGAGAA
CCCCAAACCCCAGTTTGATGTGCCCGTTGAGCACTAATCAGGGGGTCTTG
GAAGGAAATAGAGAGGAAGCTAGGAGCAGGCACCTCACATGTTGGCCTGA
CTTTTGCCTGAGTCAGCTCAGACCTGAACCCTGTTCTAGCAGAGCCTCTG
CAGCTTTCCCAGAAGGAGCTGGTCCACCATCCCCTGGACCTTTCCTTGGA
TCCTGCTGAGGTGGTAGGAAAGACAGATCAGTGACTGACATCCTCCATCC
GGGTTGGCCAGTTATTTGTCTATCCTCCCCGGCGACTTCCCTTCTCAAGA
CACCACCTACCAGGGCCCCCCCTACACAGAGAAAAAAGAATAGGGCAAAA
AGCCTGGGCAAGCTGGTTGGTGTCCTTGAGCCTCAGTTTCCACATCTGCA
AAAGGGTTAATGATCTCCATTAGTGTAAAGATTAATGAGGGGTTTTTGTT
TGTTCTGTGGGTGGGTGGGTGGGAGCTTTATTGGCTTACTTCTTGCCCCC
CCTTTTTTTCTCCCCTCCCCATGTTTCCTCTTTTTTTTCCCCACTCTCTT
TTCTTTCTTTTTTTCCCTCCCCCCTATTTCCCTTTTTCTTTCCTTCTTCT
TCCCTTTCCCCTCTGCGCTTTTGTCTTATTTTTGCCTCTATTTATTTTCC
CN

CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXTCCCCACTGAGCCTGAATTCAGAG
AACCCCAAACCCCAGTTTGAGGTGCCAGTTGAGCACTAATCAGGGGGTCT
TGGAAGGAAATAGAGAGGAAGCTAGGAGCAGGCACCTCACATGTTGGCCT
GACTTTTGCCTGAGTCAGCTCAGACCTGAACCCTGTTCTAGCAGAGCCTC
TGCAGCTTTCCCAGAAGGAGCTGGTCCACCATCCCCTGGACCTTTCCTTG
GATCCTGCTGAGGTGGTAGGAAAGACAGATCAGTGACTGACATCCTCCAT
CCGGGTTGGCCAGCAAGCTGGCTATCCTCTTTGGGGACTTCCCTTCTCAA
GACACCACCTACCAGGGGCAGGACAACACAGAGGGTAAAGAATAGGGCAA
AAAGCCTGGGCAAGCTGGTTGGTGTCCTTGAGCCTCAGTTTCCACATCTG
CAAAAGGGTTAATGATCTCCATTAGTGTAAAGATTAATGAGGGGTTTTTG
TTTGTTCTGTGGGTGGGTGGGTGGGAGCTTTATTGGGGGAGCTTCTGTCT
ATGGAAGGTGGTTAGCCTGCCCAGGGTCAATATTCCGTATATCTCCCCCA
CCTCTAAAACGTTTATGCAACCTTGTATTCTCTCACACCTGGTGACACCT
CAGATAAGGCAAGGTTCTGCTGCCCTCCAAGAACTTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no296_a17.b1 MSMg01no296_a17.b1 CHROMAT_FILE:
MSMg01no296_a17.b1 PHD_FILE: MSMg01no296_a17.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:32:08 2005
         (288 letters)



>mm_chr9_45306749_45307436
          Length = 688

 Score =  532 bits (275), Expect = e-155
 Identities = 284/287 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   tccccactgagcctgaattcagagaaccccaaaccccagtttgatgtgcccgttgagcac 60
           |||||||||||||||||||||||||||||||||||||||||||| ||||| |||||||||
Sbjct: 487 tccccactgagcctgaattcagagaaccccaaaccccagtttgaggtgccagttgagcac 428

                                                                       
Query: 61  taatcagggggtcttggaaggaaatagagaggaagctaggagcaggcacctcacatgttg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 427 taatcagggggtcttggaaggaaatagagaggaagctaggagcaggcacctcacatgctg 368

                                                                       
Query: 121 gcctgacttttgcctgagtcagctcagacctgaaccctgttctagcagagcctctgcagc 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 367 gcctgacttttgcctgagtcagctcagacctgaaccctgttctagcagagcctctgcagc 308

                                                                       
Query: 181 tttcccagaaggagctggtccaccatcccctggacctttccttggatcctgctgaggtgg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 307 tttcccagaaggagctggtccaccatcccctggacctttccttggatcctgctgaggtgg 248

                                                          
Query: 241 taggaaagacagatcagtgactgacatcctccatccgggttggccag 287
           |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 247 taggaaagacagatcagtgactgacatcctccatccgggttggccag 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: 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: 288
Length of database: 688
Length adjustment: 9
Effective length of query: 279
Effective length of database: 679
Effective search space:   189441
Effective search space used:   189441
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= MSMg01no296_a17.g1 MSMg01no296_a17.g1 CHROMAT_FILE:
MSMg01no296_a17.g1 PHD_FILE: MSMg01no296_a17.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:32:08 2005
         (535 letters)



>mm_chr9_45306658_45307592
          Length = 935

 Score = 1027 bits (531), Expect = 0.0
 Identities = 534/535 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   tccccactgagcctgaattcagagaaccccaaaccccagtttgaggtgccagttgagcac 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 578 tccccactgagcctgaattcagagaaccccaaaccccagtttgaggtgccagttgagcac 519

                                                                       
Query: 61  taatcagggggtcttggaaggaaatagagaggaagctaggagcaggcacctcacatgttg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 518 taatcagggggtcttggaaggaaatagagaggaagctaggagcaggcacctcacatgctg 459

                                                                       
Query: 121 gcctgacttttgcctgagtcagctcagacctgaaccctgttctagcagagcctctgcagc 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 458 gcctgacttttgcctgagtcagctcagacctgaaccctgttctagcagagcctctgcagc 399

                                                                       
Query: 181 tttcccagaaggagctggtccaccatcccctggacctttccttggatcctgctgaggtgg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 398 tttcccagaaggagctggtccaccatcccctggacctttccttggatcctgctgaggtgg 339

                                                                       
Query: 241 taggaaagacagatcagtgactgacatcctccatccgggttggccagcaagctggctatc 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 338 taggaaagacagatcagtgactgacatcctccatccgggttggccagcaagctggctatc 279

                                                                       
Query: 301 ctctttggggacttcccttctcaagacaccacctaccaggggcaggacaacacagagggt 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 278 ctctttggggacttcccttctcaagacaccacctaccaggggcaggacaacacagagggt 219

                                                                       
Query: 361 aaagaatagggcaaaaagcctgggcaagctggttggtgtccttgagcctcagtttccaca 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 218 aaagaatagggcaaaaagcctgggcaagctggttggtgtccttgagcctcagtttccaca 159

                                                                       
Query: 421 tctgcaaaagggttaatgatctccattagtgtaaagattaatgaggggtttttgtttgtt 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 158 tctgcaaaagggttaatgatctccattagtgtaaagattaatgaggggtttttgtttgtt 99

                                                                  
Query: 481 ctgtgggtgggtgggtgggagctttattgggggagcttctgtctatggaaggtgg 535
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98  ctgtgggtgggtgggtgggagctttattgggggagcttctgtctatggaaggtgg 44


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: 27
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: 535
Length of database: 935
Length adjustment: 10
Effective length of query: 525
Effective length of database: 925
Effective search space:   485625
Effective search space used:   485625
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)


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