BAC Information

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BAC

Clone NameMSMg01-376J18
Chromosome9 (Build37)
Map Location 58,413,358 - 58,613,299
singlet/doubletdoublet
Overlap geneNptn, 2410076I21Rik
Upstream geneScamp2, Ulk3, Cplx3, Lman1l, Csk, Cyp1a2, Cyp1a1, Edc3, Clk3, Arid3b, LOC665235, LOC677423, LOC100039509, Ubl7, Sema7a, Cyp11a1, 4930535E21Rik, Stra6, Islr, Islr2, LOC665268, Pml, Stoml1, Loxl1, Tbc1d21, 6030419C18Rik, Cd276
Downstream geneHcn4, Neo1, LOC100040186, EG665330, Adpgk, Bbs4, Arih1, LOC621119, 4930425N13Rik, Hexa, Brunol6, Parp6, Pkm2, 4933407I18Rik, Gramd2, Senp8, Myo9a
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-376J18.T7 (MSMg01no376_j18.b1)MSMg01-376J18.TJ (MSMg01no376_j18.g1)
ACCAG481886AG481887
length729739
length of high quality
(start - end)		199 (48 - 246)453 (80 - 532)
definitionCHROMAT_FILE: MSMg01no376_j18.b1 PHD_FILE: MSMg01no376_j18.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:16:32 2005CHROMAT_FILE: MSMg01no376_j18.g1 PHD_FILE: MSMg01no376_j18.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:16:33 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(58,613,111 - 58,613,299)(58,413,358 - 58,413,810)
sequence
NCCCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGC
GGAATTCCATGTAGTTCTTTCCTTCTATAAAGCACCCAGACTCTAAGCTC
GGGGCCATAAAAGTATTTTGTGTCCTATAGTATTGATGTTAGCTCAGACC
CATGTCCAGAAGCCTTCAAAATATCTAGATGTTCCCCCTGATTAAGGTCA
CCCTGATAAATGTCTCTAGGTCCTTGGGGCGGGGGGGGGGGGAGNANNNN
NNNNNNTTNNNNNNGGNNNNNNNGNGGNGGGGGGGGNGGGGGGGNGNGNG
GNGGNNNNNNNGGGGGGGGGTTTTTTTTTTTGGGGNGGGGGTGGTGTNTT
GTGTNGTTTTGTTTTTTTGTTTTTGTTTTTTGTGTGTTTTTTTTTTTTTT
TGTTTTTTTGTTTTTTNGNNGTGTGTGTTTTTGTTGTTGTTTGTGTTTGG
TTTGTTGTTGTTGTGTTTTTTTTTTGTGGTTTTTTTTTTNGTTTTTGTTT
TTTTTTTTTGTTGTTGTTTGTTGTTGGGTTTTGTTTGTTTTGTGTTTTTT
GTTGTTGTTTTGGTTGGTTTTTTTTTGTGTTTTTTTGTTTGTTGGGTTTG
TTGTTGTGTGTTTGTGTTTCTTTTTTTTTGTGTTGTGTGTTTTGTTGTTT
GTTTTGGTTTTTTTTTTTTTTTTTTGTTTGTTTTTGTTGTGTGTTTGGGT
TGTTTTGTTTTTTTTGTTGTTGTTTTTTT

NCCGAATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXAGTAGGTAGTCACAGGAGCAT
GAGAAGTTCTAAGTGATCCTCAGTTACATATTACCTTTTAGATCAGTCTG
ATACACATGAGACTCTGACTCAAAAGAAACATTTTAAAGAGAATTTATGT
CTTTGGAGAAAGTAAGGAGGAGCTTGCTGTTATTAAAAAAAAGGTAGTAA
TAGGAAAACAGGAAATATTGAAATTTATAAAATGAATTGCCTAGCTGGCA
TAAACCTGTAATACTAGAACTTAGGAGGCAGGTATAAGGAGTACCAGCCT
GTCCCAGCTAGTTCATGTTACAGGATATTTGAATATTGTATGTAGAAAAC
CTAACTGTTAGCAAAATATACAAGCTTAGAAAGATATTGTGTTGTCAAAT
GCAGCTAAGTGTCCTCTAGAGAAGCAGTTTGGGAGTACTTCTAAACGTCT
TCATACATAAGAATGCTAACAGATGGAATGTTCCTGCCTGTTCTAAAGCA
AGTTGCTTAAGAGAAGTTGTGTGGCCTTTGCTCTATGATCTGAGGCAAAG
TCCAGCTACCCCACCCTTAAAAGGATAAATGGTTCCACCCTATAGAATTG
GGTTTGGAGCCACCTTACCCTGAAGGGCAACTTGATTTTACCCTGGCCCC
GGCAACGTGACCCTGGTTTTCTCCCTCCCCGCGTAAAAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no376_j18.b1 MSMg01no376_j18.b1 CHROMAT_FILE:
MSMg01no376_j18.b1 PHD_FILE: MSMg01no376_j18.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:16:32 2005
         (199 letters)



>mm_chr9_58612907_58613505
          Length = 599

 Score =  342 bits (177), Expect = 7e-99
 Identities = 186/189 (98%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattccatgtagttctttccttctataaagcacccagactctaagctcggggccataaa 64
           |||||||||||||  ||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 393 gaattccatgtagcacttgccttctataaagcacccagactctaagctcggggccataaa 334

                                                                       
Query: 65  agtattttgtgtcctatagtattgatgttagctcagacccatgtccagaagccttcaaaa 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 333 agtattttgtgtcctatagtattgatgttagctcagacccatgtccagaagccttcaaaa 274

                                                                       
Query: 125 tatctagatgttccccctgattaaggtcaccctgataaatgtctctaggtccttggggcg 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 273 tatctagatgttccccctgattaaggtcaccctgataaatgtctctaggtccttggggcg 214

                    
Query: 185 ggggggggg 193
           |||||||||
Sbjct: 213 ggggggggg 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: 8
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: 199
Length of database: 599
Length adjustment: 8
Effective length of query: 191
Effective length of database: 591
Effective search space:   112881
Effective search space used:   112881
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= MSMg01no376_j18.g1 MSMg01no376_j18.g1 CHROMAT_FILE:
MSMg01no376_j18.g1 PHD_FILE: MSMg01no376_j18.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:16:33 2005
         (453 letters)



>mm_chr9_58413158_58414010
          Length = 853

 Score =  868 bits (449), Expect = 0.0
 Identities = 452/453 (99%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  agatcagtctgatacacatgagactctgactcaaaagaaacattttaaagagaatttatg 120
           |||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 261 agatcagtctgatacacatgagactctgactcaaaagaaaaattttaaagagaatttatg 320

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

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

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

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

                                                                       
Query: 361 tgttgtcaaatgcagctaagtgtcctctagagaagcagtttgggagtacttctaaacgtc 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 tgttgtcaaatgcagctaagtgtcctctagagaagcagtttgggagtacttctaaacgtc 620

                                            
Query: 421 ttcatacataagaatgctaacagatggaatgtt 453
           |||||||||||||||||||||||||||||||||
Sbjct: 621 ttcatacataagaatgctaacagatggaatgtt 653


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: 22
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: 453
Length of database: 853
Length adjustment: 10
Effective length of query: 443
Effective length of database: 843
Effective search space:   373449
Effective search space used:   373449
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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