BAC Information

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BAC

Clone NameMSMg01-166F09
Chromosome5 (Build37)
Map Location 38,480,746 - 38,623,118
singlet/doubletdoublet
Overlap geneStx18, Nsg1, LOC100040397, Zfp509, Lyar
Upstream geneJakmip1, EG330070, Gm1043, LOC100040936, Crmp1, Evc, Evc2, LOC100040355, LOC100040988, Stk32b, Cytl1, Msx1
Downstream geneTmem128, Otop1, Drd5, 4930487D11Rik, Slc2a9, Wdr1, 4930421P07Rik, 6820424L24Rik, Clnk
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-166F09.T7 (MSMg01no166_f09.b1)MSMg01-166F09.TJ (MSMg01no166_f09.g1)
ACCAG364193AG364194
length747787
length of high quality
(start - end)		313 (48 - 360)339 (76 - 414)
definitionCHROMAT_FILE: MSMg01no166_f09.b1 PHD_FILE: MSMg01no166_f09.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:34:48 2005CHROMAT_FILE: MSMg01no166_f09.g1 PHD_FILE: MSMg01no166_f09.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:34:48 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(38,622,810 - 38,623,118)(38,480,746 - 38,481,082)
sequence
CGTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGC
GGAATTCACTGCCAATTCCAAGGGCAATAAATACATCGCTACGGTCTGGA
TCTGGAATTCCCTAGAGGCTGAGACCCAGCTCAGTGCCACGACAAGTATA
GAAACCTTGTCAAGGTCGGACACTAGTAGATGTGACCTTTAAGAGGCTAT
GGGACCTGAGCCTCTTCTTTTCCTTCCTGGCCTTTTGAAGAGCAGAGCCC
TACCACAGACCCCCAAATCAATAGGGCTTAGTGACCATGAGCCAAAAGTA
ATTGATTTTATAGTTTGATCATCTCAGATATTTGTCACAGTAGTGAAACA
CTAGCCAACATCTCTTTTTATTCCTCCCCCCCACCCCCCCCCCCANCCTT
CCTTAAGAGAGGATCGCCCCCCCCGCGGAAACAACATAAAGGCCTGGAAT
ACTGGATTAACTTCAAAAGTCTTTGCTGGGCCTCTGATGGGTGTGACCCT
GCAAGGAAGTGCCTGGCCTACCTCTGGCACGGAGCACCCCTCCCTCCCCA
CTTGGAGTCAACATAGGCAGTGGTACCTTTCGATGGAGACTCGTGGTCCT
TGGCCTCTCCCTCTTCCGGCTGCTCTGGGAACTTCCTCTCTTTTTTCTTG
GAAACTAACTCATCTTGTTCACAACCCACGCGAGGTTGGCGTTTTTGTTC
TTTTTTCAGCCTTACTCCACCACCTTTTTTTTTTTTTCTTTTTTTTT

CCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXTGGGAGCCATTCTGTAGTAGAACAA
GCTGGTTCTCAGTCGGAGTCCAGAACAGACCCAGACTGACAGCACTTTAC
ATACACAGCCGATGAGGATCAGATTCAGTCAGCTGGCCTCAGGACGATTT
TCGAAGACACAGAGAGAGGAGAATCATGGTGCCACAGGTAGAGCCTCTGT
GGACCCAGTAACTGAGTGGTCAGTGATGGGAAAGACAAGGGTATGATCAG
GAGCCTGCTAAGAGCCAGGCACTGAGGTGCAGGAAGGGGCCAGCTCCTAT
AGCAGATACTTAGCAAGGTGAGTAGGCAGAACTCACAGGTATGGTTTAAC
TGGTGGGCATAACGCCCCCCCCCGCGATTTTCTGGNTTGGGACTTGAGAG
AGAGGAAGTGAGAGAGAATATCACGTCTTTAGGGTGATGTTTATACTGCG
CACTGATCTATATTTGAGATATAATTGACCTTCTACCGCTTTTTATTTAC
TTATCCCATTATTACTCCCCTCTCTTCTGTCCATTAATATTTTTCTTTCC
TATTTTTTTTTTTTCCTTTGGCCCCCCTTTCATTTTTTTTGCTTTCACCG
TTCTTCTTCACCGTATTGACTTTCCTCAATTCCCCCCTCTCACAACTCTA
CTAATATTCATCAACTCCCCTATACCTTTTATCATACCCACCCCGTAAAT
TTTCTTCCTCTATTTTCAACACCCTTTTCACCCCTTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no166_f09.b1 MSMg01no166_f09.b1 CHROMAT_FILE:
MSMg01no166_f09.b1 PHD_FILE: MSMg01no166_f09.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:34:48 2005
         (313 letters)



>mm_chr5_38622606_38623318
          Length = 713

 Score =  574 bits (297), Expect = e-168
 Identities = 306/309 (99%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcactgccaattccaagggcaataaatacatcgctacggtctggatctggaattcc 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 513 gaattcactgccaattccaagggcaataaatacatcgctacggtctggatctggaattcc 454

                                                                       
Query: 65  ctagaggctgagacccagctcagtgccacgacaagtatagaaaccttgtcaaggtcggac 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 453 ctagaggctgagacccagctcagtgccacgacaagtatagaaaccttgtcaaggtcggac 394

                                                                       
Query: 125 actagtagatgtgacctttaagaggctatgggacctgagcctcttcttttccttcctggc 184
           ||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct: 393 actagtagatgtgacctttaagaggctgtgggacctgagcctcttcttttccttcctggc 334

                                                                       
Query: 185 cttttgaagagcagagccctaccacagacccccaaatcaatagggcttagtgaccatgag 244
           |||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 333 cttttgaagagcagagccctaccacagacccccaaatcaacagggcttagtgaccatgag 274

                                                                       
Query: 245 ccaaaagtaattgattttatagtttgatcatctcagatatttgtcacagtagtgaaacac 304
           ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 273 ccaaaagtaattgattttatagtttgatcatctcagatattggtcacagtagtgaaacac 214

                    
Query: 305 tagccaaca 313
           |||||||||
Sbjct: 213 tagccaaca 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: 14
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: 313
Length of database: 713
Length adjustment: 9
Effective length of query: 304
Effective length of database: 704
Effective search space:   214016
Effective search space used:   214016
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= MSMg01no166_f09.g1 MSMg01no166_f09.g1 CHROMAT_FILE:
MSMg01no166_f09.g1 PHD_FILE: MSMg01no166_f09.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:34:48 2005
         (339 letters)



>mm_chr5_38480546_38481284
          Length = 739

 Score =  629 bits (325), Expect = 0.0
 Identities = 334/337 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   tgggagccattctgtagtagaacaagctggttctcagtcggagtccagaacagacccaga 60
           |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 201 tgggagccattctgtagtagaacaagctggttctcagttggagtccagaacagacccaga 260

                                                                       
Query: 61  ctgacagcactttacatacacagccgatgaggatcagattcagtcagctggcctcaggac 120
           ||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 ctggcagcactttacatacacagccgatgaggatcagattcagtcagctggcctcaggac 320

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

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

                                                                       
Query: 241 caggcactgaggtgcaggaaggggccagctcctatagcagatacttagcaaggtgagtag 300
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 441 caggcactgaggtgcaggaaggggccagcttctatagcagatacttagcaaggtgagtag 500

                                                
Query: 301 gcagaactcacaggtatggtttaactggtgggcataa 337
           |||||||||||||||||||||||||||||||||||||
Sbjct: 501 gcagaactcacaggtatggtttaactggtgggcataa 537


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: 17
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: 339
Length of database: 739
Length adjustment: 9
Effective length of query: 330
Effective length of database: 730
Effective search space:   240900
Effective search space used:   240900
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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