BAC Information

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BAC

Clone NameMSMg01-520I19
Chromosome9 (Build37)
Map Location 55,828,292 - 56,019,295
singlet/doubletdoublet
Overlap gene4930563M21Rik, LOC664995, LOC665005, Rcn2, Pstpip1, Tspan3
Upstream geneChrna5, Chrna3, Chrnb4, EG640554, LOC664897, 1700071A11Rik, Ube2q2, Fbxo22, Nrg4, AI118078, Etfa, LOC546133, Isl2, Zfp291, LOC664980
Downstream geneC230081A13Rik, Hmg20a, LOC100039535, LOC100039549, LOC640537, Lingo1, Odf3l1, Cspg4, Sh3px3, Imp3, Snupn, Ptpn9, 2700012I20Rik, Sin3a, Man2c1, Neil1, Commd4
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-520I19.T7 (MSMg01no520_i19.b1)MSMg01-520I19.TJ (MSMg01no520_i19.g1)
ACCAG591555AG591556
length739754
length of high quality
(start - end)		605 (70 - 674)570 (78 - 647)
definitionCHROMAT_FILE: MSMg01no520_i19.b1 PHD_FILE: MSMg01no520_i19.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:53:38 2005CHROMAT_FILE: MSMg01no520_i19.g1 PHD_FILE: MSMg01no520_i19.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:53:38 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(56,018,779 - 56,019,295)(55,828,292 - 55,828,858)
sequence
TGATACTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCG
CGGAATTCAATACTCTTCTTCTGGCCTCTGGGTGATACCTCTAGCTCTAG
CTCTAGCTCTAGCTCTAGCTCTAGCTCTAGCTCTAGCTCTATCTCTATCT
CTATCTCTATCTCTATCTCTATCTCTATCTCTATCTCTATCTCTATCTCT
ATCTCTATCTCTATCTCTATCTCTATCTCTATCTCTATCTCTATCTCTAT
CTGGTGTATAGACTTATGTGCATGCAAAGCATCGTAAATAAACAAACAAA
CAAACAAACCTGAGAGCCCACTAATAGGAATGGGTAAAGAAACATGGTCC
ATATATACAATTGAAAAGAATTAGAGAATCATTGATAAGCAAAATAAATC
AATCACAGAAGATAAATAGCAGCTAAAACAGAGCCATGGAGCGAGAGAAT
AGGACGGTGGTTACTAAGGTTTGGGAGGAGAAGGAGATGACAGCCAGAAG
TTACAGGGGACAGTCAAACAATTTATTCTAAAGAGAAATAGCATTTGTGC
TAAGGGCTAAGGACAGAGCTCAGTGGCAGAGTGCTTGGCTAGCATGCATG
TGGCTAGCAGCTTTCTGTCCACTCCACTAAAGAGACTATGTAATGTGGGC
AGGAGGGGATGCCTTCTACAGAGCAAATTGTGGAGTGTGTGTGTGTGTGT
GTGTGTGTGTGTGTGTGTGTGTGTTGTCGATATTAAATA

NNCCCAATGATAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXTTAGTCCTCTCACTAGACATGGT
ATCCTCAGTGTTGTGATCCCCGCCATCCATACCTGGAAGACAGTCAGTGG
AGAGATTGACTCACACATTAGTGCCTAGAGTAGGGGAAGCCACTCGCCTC
ACACAAGAACACTTGTCGTCCAGTGAGAACCACAATAGAAATGGATTGCA
TTTCTACAGATGTACTGGGGGAACAAACTTGTCATTTTAAAAATACTGCA
AAACAGCCTTATTCTTTTCCCAGAGGTGATGGAGTATAAACCTACCACTA
ACGTGAATAACTCAAACTAATGATTGAACTTCCACTGTACCTTTAGTGCT
GCGCGCCTTTTCTGCAGACTGGAGGAGATTTATGTCAGGTTCTTTCTGGG
AATGCATATCTTCACAACCCAGTCTTTTCATGACGGCAGAAACTGAAATG
CATTTGCAACAACAACAAAAAGCTAGGTCAGCTGAACAGCATTAAAAGAG
AGGAAACCTATCTTTTAATAATAGCTGTGTTTAAACACTGCACTTATCTG
ATTCAGTATTCTTGAAGATGACAGGCACCAATGATCCTTTACTGGACGTA
GGACTGGTCAGTCCTTACATGGATAAGCTCTAGATTCATGTGTACAAGGT
AGTGTTGACAGAAGGGTAGTGTAGCAGGGTGATCAGCATACAACTCTCTT
TTGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no520_i19.b1 MSMg01no520_i19.b1 CHROMAT_FILE:
MSMg01no520_i19.b1 PHD_FILE: MSMg01no520_i19.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:53:38 2005
         (605 letters)



>mm_chr9_56018460_56019464
          Length = 1005

 Score =  977 bits (505), Expect = 0.0
 Identities = 514/517 (99%)
 Strand = Plus / Minus

                                                                       
Query: 89  tatctctatctctatctctatctctatctctatctctatctctatctctatctctatctc 148
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 836 tatctctatctctatctctatctctatctctatctctatctctatctctatctctatctc 777

                                                                       
Query: 149 tatctctatctctatctctatctctatctctatctggtgtatagacttatgtgcatgcaa 208
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 776 tatctctatctctatctctatctctatctctatctggtgtatagacttatgtgcatgcaa 717

                                                                       
Query: 209 agcatcgtaaataaacaaacaaacaaacaaacctgagagcccactaataggaatgggtaa 268
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 716 agcatcgtaaacaaacaaacaaacaaacaaacctgagagcccactaataggaatgggtaa 657

                                                                       
Query: 269 agaaacatggtccatatatacaattgaaaagaattagagaatcattgataagcaaaataa 328
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 656 agaaacatggtccatatatacaattgaaaagaattagagaatcattgataagcaaaataa 597

                                                                       
Query: 329 atcaatcacagaagataaatagcagctaaaacagagccatggagcgagagaataggacgg 388
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 596 atcaatcacagaagataaatagcagctaaaacagagccatggagcgagagaataggacgg 537

                                                                       
Query: 389 tggttactaaggtttgggaggagaaggagatgacagccagaagttacaggggacagtcaa 448
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 536 tggttactaaggtttgggaggagaaggagatgacagccagaagttacaggggacagtcaa 477

                                                                       
Query: 449 acaatttattctaaagagaaatagcatttgtgctaagggctaaggacagagctcagtggc 508
           ||| ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct: 476 acagtttattctaaagagaaatagcgtttgtgctaagggctaaggacagagctcagtggc 417

                                                                       
Query: 509 agagtgcttggctagcatgcatgtggctagcagctttctgtccactccactaaagagact 568
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 416 agagtgcttggctagcatgcatgtggctagcagctttctgtccactccactaaagagact 357

                                                
Query: 569 atgtaatgtgggcaggaggggatgccttctacagagc 605
           |||||||||||||||||||||||||||||||||||||
Sbjct: 356 atgtaatgtgggcaggaggggatgccttctacagagc 320


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: 99
Number of extensions: 27
Number of successful extensions: 26
Number of sequences better than 10.0: 1
Number of HSP's gapped: 26
Number of HSP's successfully gapped: 1
Length of query: 605
Length of database: 1005
Length adjustment: 10
Effective length of query: 595
Effective length of database: 995
Effective search space:   592025
Effective search space used:   592025
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= MSMg01no520_i19.g1 MSMg01no520_i19.g1 CHROMAT_FILE:
MSMg01no520_i19.g1 PHD_FILE: MSMg01no520_i19.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:53:38 2005
         (570 letters)



>mm_chr9_55828092_55829061
          Length = 970

 Score = 1019 bits (527), Expect = 0.0
 Identities = 557/567 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   ttagtcctctcactagacatggtatcctcagtgttgtgatccccgccatccatacctgga 60
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 ttagtcctctcactagaaatggtatcctcagtgttgtgatccccgccatccatacctgga 260

                                                                       
Query: 61  agacagtcagtggagagattgactcacacattagtgcctagagtaggggaagccactcgc 120
           |||||||||||||||| ||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 261 agacagtcagtggagacattgactcacacattagtgcctatagtaggggaagccactcgc 320

                                                                       
Query: 121 ctcacacaagaacacttgtcgtccagtgagaaccacaatagaaatggattgcatttctac 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 321 ctcacacaagaacacttgtcgtccagtgagaaccacaatagaaatggattgcagttctac 380

                                                                       
Query: 181 agatgtactgggggaacaaacttgtcattttaaaaatactgcaaaacagccttattcttt 240
           |||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct: 381 agatgtactgggggaacaaacttgtcattttaaaaatactgcaaaacagcctcattcttt 440

                                                                       
Query: 241 tcccagaggtgatggagtataaacctaccactaacgtgaataactcaaactaatgattga 300
           |||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct: 441 tcccagaggtgatggagtataaacctaccactaacgtgaataactcaaacgaatgattga 500

                                                                       
Query: 301 acttccactgtacctttagtgctgcgcgccttttctgcagactggaggagatttatgtca 360
           |||||||||||||| ||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 501 acttccactgtaccgttagtgctgcgcgccttttctgcagactgaaggagatttatgtca 560

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

                                                                       
Query: 421 atgcatttgcaacaacaacaaaaagctaggtcagctgaacagcattaaaagagaggaaac 480
           |||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 621 atgcatttgcaacaacaacaaaaagctaggtcagctgaactgcattaaaagagaggaaac 680

                                                                       
Query: 481 ctatcttttaataatagctgtgtttaaacactgcacttatctgattcagtattcttgaag 540
           |||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 ctatctcttaataatagctgtgtttaaacactgcacttatctgattcagtattcttgaag 740

                                      
Query: 541 atgacaggcaccaatgatcctttactg 567
           |||||||||||||||||||||||||||
Sbjct: 741 atgacaggcaccaatgatcctttactg 767


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: 26
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: 570
Length of database: 970
Length adjustment: 10
Effective length of query: 560
Effective length of database: 960
Effective search space:   537600
Effective search space used:   537600
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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