BAC Information

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BAC

Clone NameMSMg01-376M21
Chromosome9 (Build37)
Map Location 60,208,761 - 60,364,459
singlet/doubletdoublet
Overlap geneThsd4, LOC100039792
Upstream geneArih1, LOC621119, 4930425N13Rik, Hexa, Brunol6, Parp6, Pkm2, 4933407I18Rik, Gramd2, Senp8, Myo9a, EG665385, LOC100040361, Nr2e3, EG665389
Downstream geneEG384942, Lrrc49, Larp6, LOC100040447, Uaca, ENSMUSG00000052143, A430102L10, LOC100040481, Tle3, LOC100039851
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-376M21.T7 (MSMg01no376_m21.b1)MSMg01-376M21.TJ (MSMg01no376_m21.g1)
ACCAG482035AG482036
length786767
length of high quality
(start - end)		331 (45 - 375)402 (77 - 478)
definitionCHROMAT_FILE: MSMg01no376_m21.b1 PHD_FILE: MSMg01no376_m21.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:16:47 2005CHROMAT_FILE: MSMg01no376_m21.g1 PHD_FILE: MSMg01no376_m21.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:16:47 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(60,364,136 - 60,364,459)(60,208,761 - 60,209,162)
sequence
NTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCAGGTCTTCTACGATCAGCCAGACATTACCCTGTTCCATAGCTTAGA
CAGCAGAGGCTCACGTAGCAAGTGTACAGCTGGGTGACCTTTGGGCTCTA
CCTGGCTCTAAAACAGATACTCTGGGACCAGACAGACCAGTTAGTGAATA
ATAGGCAACCAGAGAGTAAAACTCCATCCCTCATCTGCACACAGTATGCC
AGCTGTGCCTCATCTGCACATAGTATGCCAGCTGCATCTAGTGGTCTGTT
TGTTCCTTCCTATATGCTTATATATATTTTTGTTTGTATGTATGTATGTA
TGTATGTATGTATGTATGTATGNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

CCGATGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXAAGGAGTTTAAGGAAGTCACACAT
TAACATCTGGACAGTTGAAAGATGACAGGAATAAGTTCCTGATTAAAGTC
ATAGAAAACACAGATAGCTGCATACAATTATGAACAGTTCAGGGAAAAAG
TTCGTCCAACAGAGGGAAATTTCCCTTACCCCATTTTACTGATAGGAATG
CTAAGGCCTCCATCCTGAAGCCAACAGACTGAAGAGTGGACACTTTAATG
ATTATCTCACATGGCACCATGCAAAAGGACAGTATACATGGTCACAATGG
ATCGCGATAAACTAGAACCTTTGCTATCAAACAACTTTAGAGTCATCACT
CAAAATCAAATTCCTGGAGGTAATAAACCAATCTTTAACTACTGAATGAG
CCTCACTTATATATGCGAATACTTTTGAAATGGCATGCAGATAATCTGAA
AATTTCCTAACGCTCTGGGAAGGTAACTCCCCTCAACAAATGTATCCCAA
ACACTGCAGGGACTGACTTCCTATAAATCCAATTGACCCTATTTTATTCA
GACTTTGGTAGGGGGAATTTCCGGAAATATTTTATAAGGAAACTCCCTGG
TGCACCTGGTAAACATTCCAAAATTTTCGGTTTTGGAAATTGGGATTTAA
GTAGAACCTGGAATTCCCCGGGAAAATCCGGACGTTTTCATTTCCCGGAA
TTCAATAAAAAAAAAGT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no376_m21.b1 MSMg01no376_m21.b1 CHROMAT_FILE:
MSMg01no376_m21.b1 PHD_FILE: MSMg01no376_m21.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:16:47 2005
         (331 letters)



>mm_chr9_60363984_60364714
          Length = 731

 Score =  611 bits (316), Expect = e-179
 Identities = 322/324 (99%)
 Strand = Plus / Minus

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

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

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

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

                                                                       
Query: 245 tagtggtctgtttgttccttcctatatgcttatatatatttttgtttgtatgtatgtatg 304
           ||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 236 tagtggtctgtttgttccttcctatatgcttatatatatttttgtttgtttgtatgtatg 177

                                   
Query: 305 tatgtatgtatgtatgtatgtatg 328
           ||||||||||||||||| ||||||
Sbjct: 176 tatgtatgtatgtatgtgtgtatg 153


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: 32
Number of extensions: 7
Number of successful extensions: 7
Number of sequences better than 10.0: 1
Number of HSP's gapped: 7
Number of HSP's successfully gapped: 1
Length of query: 331
Length of database: 731
Length adjustment: 9
Effective length of query: 322
Effective length of database: 722
Effective search space:   232484
Effective search space used:   232484
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= MSMg01no376_m21.g1 MSMg01no376_m21.g1 CHROMAT_FILE:
MSMg01no376_m21.g1 PHD_FILE: MSMg01no376_m21.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:16:47 2005
         (402 letters)



>mm_chr9_60208561_60209362
          Length = 802

 Score =  754 bits (390), Expect = 0.0
 Identities = 399/402 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   aaggagtttaaggaagtcacacattaacatctggacagttgaaagatgacaggaataagt 60
           ||||||||||||||||||||||||||||||||| | ||||||||||||||||||||||||
Sbjct: 201 aaggagtttaaggaagtcacacattaacatctgtatagttgaaagatgacaggaataagt 260

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

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

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

                                                                       
Query: 241 ccatgcaaaaggacagtatacatggtcacaatggatcgcgataaactagaacctttgcta 300
           |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 441 ccatgcaaaaggacagtatacatggtcacaatggatcgagataaactagaacctttgcta 500

                                                                       
Query: 301 tcaaacaactttagagtcatcactcaaaatcaaattcctggaggtaataaaccaatcttt 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 tcaaacaactttagagtcatcactcaaaatcaaattcctggaggtaataaaccaatcttt 560

                                                     
Query: 361 aactactgaatgagcctcacttatatatgcgaatacttttga 402
           ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 aactactgaatgagcctcacttatatatgcgaatacttttga 602


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: 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: 402
Length of database: 802
Length adjustment: 9
Effective length of query: 393
Effective length of database: 793
Effective search space:   311649
Effective search space used:   311649
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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