BAC Information

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BAC

Clone NameMSMg01-540A14
Chromosome9 (Build37)
Map Location 56,851,219 - 57,040,807
singlet/doubletdoublet
Overlap genePtpn9, 2700012I20Rik, Sin3a, Man2c1, Neil1, Commd4, 1700041C23Rik
Upstream geneLOC664995, LOC665005, Rcn2, Pstpip1, Tspan3, C230081A13Rik, Hmg20a, LOC100039535, LOC100039549, LOC640537, Lingo1, Odf3l1, Cspg4, Sh3px3, Imp3, Snupn
Downstream geneTrcg1, 1700017B05Rik, EG330948, Ppcdc, Scamp5, D9Wsu149, LOC620603, Rpp25, Cox5a, 2310046O06Rik, Mpi1, Scamp2, Ulk3, Cplx3, Lman1l, Csk, Cyp1a2, Cyp1a1, Edc3, Clk3, Arid3b, LOC665235, LOC677423, LOC100039509, Ubl7, Sema7a, Cyp11a1, 4930535E21Rik, Stra6, Islr
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-540A14.T7 (MSMg01no540_a14.b1)MSMg01-540A14.TJ (MSMg01no540_a14.g1)
ACCAG606384AG606385
length747749
length of high quality
(start - end)		668 (44 - 711)569 (77 - 645)
definitionCHROMAT_FILE: MSMg01no540_a14.b1 PHD_FILE: MSMg01no540_a14.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:19:11 2005CHROMAT_FILE: MSMg01no540_a14.g1 PHD_FILE: MSMg01no540_a14.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:19:11 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(57,040,147 - 57,040,807)(56,851,219 - 56,851,786)
sequence
NACTTXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCGAGGATCCGCGGA
ATTCTATTTCCTCCTTTTCCCAAAGAGACTCGCCACCTCCTACAGTGTAT
ATGATCACTCTGGTTCAACCATGGTACTTAATGAAAAGGTATCACAAAGG
TCACCTTTCTGTCTAGAAAAAGCAAAGGCTGCCTCACCTCGGTCATAGTT
GTCCTTGCTCCCTCCTCCTCCCTTGTGATCATCAGACCCTGACCTTGCTC
AGGGAGCAGCACTAGGAAGACACAAAATAACCCTCAACTGGGGACACCAC
AGTGGGCTCTGCCTGAGTTGTGTGGCCAGTGTCATGTCTGCCACTGAGTG
AAGAGCAAGCACTTTGGCTACTCGAGCCCATCCCCCTCTCGGGGGAAAGG
ACAGGAGAGGAAGAGCTGGAGAAAGATGAAAAATGGAACATTTCTAAATG
ATGAGAATGTTAAGCCAAACGAAACAACCCATCTTTGATTTGGTCAACAC
TGAATTAAATGTTAGGATAGAATGACTGAATTCTACCACTTATGCCAACC
AGATTGCAATCAGGAAAGTTGACACTACTTTCTCAATGGCTGCCCAACCT
GTCTTTCATCAGCACTGATCAATATGCAGATTCTCTATCCACCTTGAGCA
TATATGTTATGTTTTAAATGTGCATGTGTGCATGGTATTCATATGGGGTT
CTGACTCTTGTGTTCCCTGTATGAAGGTCTGAGCCCTACTTTGTGGA

NNTTGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXTCAGCCTATTACTGCATTACTAAG
TATGTAATCAGCAATTAGGTGAGATGTTATTTGGGTTTAAGTATATTNTG
GAAATAAGAGTGAAATATGAATTTTACTCTTAAAATTTTGGAGCCTGAGT
TTTGGAATTAAGAGTTTTGTAATTATTAAGCACCTACAGGTTTTTTTCCT
AGAATGTGACCTATTATTTACAGACCTTAGAGCTTCAGTTGCAGGTGTGA
GCTTCCACACCTGACAGGATTAGTATATTGGAATAAACTTTTCTAACTAT
GGCTTTATCTTCTTGGAAAATATATAGGCCTGCCTCATTGTATATCAGAG
AGACTGTCTCATTACAGTCTCAATACTCTGGAACTGAGCCCTAACTCTGG
TCTTTTATCAGTTATTTTACATTTCCTATTTTCATCCTGCTTTAAAACTT
TAGATGATAGCATATTTTATTTTTCTTGATTAATTACTAGAATATTTTCT
CTCTGCATACCTTCATATAACAGCTCATCAGAAAGACTGGGAGGAACTTC
AGAGTAGCAGGGCATTTGTTTTGTATGAGAAAGGGCTGGGTTTGAGGATA
ACCTGGGCTACATAGTGAGACTCTTAAAAACAAAATAAAACCAACTCTTT
CAGTTATTTCCTAACTACTGGAGTAATTGCTAGTTTTTGTTCTGCTTCT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no540_a14.b1 MSMg01no540_a14.b1 CHROMAT_FILE:
MSMg01no540_a14.b1 PHD_FILE: MSMg01no540_a14.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:19:11 2005
         (668 letters)



>mm_chr9_57039943_57041007
          Length = 1065

 Score = 1230 bits (636), Expect = 0.0
 Identities = 656/664 (98%), Gaps = 3/664 (0%)
 Strand = Plus / Minus

                                                                       
Query: 5   ggaattctatttcctccttttcccaaagagactcgccacctcctacagtgtatatgatca 64
           |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 865 ggaattctatttcctccttttcccaaagagactcgctacctcctacagtgtatatgatca 806

                                                                       
Query: 65  ctctggttcaaccatggtacttaatgaaaaggtatcacaaaggtcacctttctgtctaga 124
           ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 805 ctctggttcaaccatggtacttaatgaaaaggtatcacaaaagtcacctttctgtctaga 746

                                                                       
Query: 125 aaaagcaaaggctgcctcacctcggtcatagttgtccttgctccctcctcctcccttgtg 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 745 aaaagcaaaggctgcctcacctcggtcatagttgtccttgctccctcctcctcccttgtg 686

                                                                       
Query: 185 atcatcagaccctgaccttgctcagggagcagcactaggaagacacaaaataaccctcaa 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 685 atcatcagaccctgaccttgctcagggagcagcactaggaagacacaaaataaccctcaa 626

                                                                       
Query: 245 ctggggacaccacagtgggctctgcctgagttgtgtggccagtgtcatgtctgccactga 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 625 ctggggacaccacagtgggctctgcctgagttgtgtggccagtgtcatgtctgccactga 566

                                                                       
Query: 305 gtgaagagcaagcactttggctactcgagcccatccccctctcgggggaaaggacaggag 364
           ||||||||||||||||||||||||| ||||||||||||||||| ||||||||||||||||
Sbjct: 565 gtgaagagcaagcactttggctacttgagcccatccccctctctggggaaaggacaggag 506

                                                                       
Query: 365 aggaagagctggagaaagatgaaaaatggaacatttctaaatgatgagaatgttaagcca 424
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 aggaagagctggagaaagatgaaaaatggaacatttctaaatgatgagaatgttaagcca 446

                                                                       
Query: 425 aacgaaacaacccatctttgatttggtcaacactgaattaaatgttaggatagaatgact 484
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 445 aacgaaacaacccatctttgatttggtcaacactgaattaaatgttaggatagaatgact 386

                                                                       
Query: 485 gaattctaccacttatgccaaccagattgcaatcaggaaagttgacactactttctcaat 544
           |||||||||||||||||| |||||||||||||||||||||||||||   |||||||||||
Sbjct: 385 gaattctaccacttatgctaaccagattgcaatcaggaaagttgac---actttctcaat 329

                                                                       
Query: 545 ggctgcccaacctgtctttcatcagcactgatcaatatgcagattctctatccaccttga 604
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 328 ggctgcccaacctgtctttcatcagcactgatcaatatgcagattctctatccaccttga 269

                                                                       
Query: 605 gcatatatgttatgttttaaatgtgcatgtgtgcatggtattcatatggggttctgactc 664
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 268 gcatatatgttatgttttaaatgtgcatgtgtgcatggtattcatatggggttctgactc 209

               
Query: 665 ttgt 668
           ||||
Sbjct: 208 ttgt 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: 31
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 668
Length of database: 1065
Length adjustment: 10
Effective length of query: 658
Effective length of database: 1055
Effective search space:   694190
Effective search space used:   694190
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= MSMg01no540_a14.g1 MSMg01no540_a14.g1 CHROMAT_FILE:
MSMg01no540_a14.g1 PHD_FILE: MSMg01no540_a14.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:19:11 2005
         (569 letters)



>mm_chr9_56851019_56851986
          Length = 968

 Score = 1069 bits (553), Expect = 0.0
 Identities = 565/569 (99%), Gaps = 1/569 (0%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  ttaagtatattntggaaataagagtgaaatatgaattttactcttaaaattttggagcct 120
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 ttaagtatatt-tggaaataagagtgaaatatgaattttactcttaaaattttggagcct 319

                                                                       
Query: 121 gagttttggaattaagagttttgtaattattaagcacctacaggtttttttcctagaatg 180
           |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 320 gagttttggaattaagagttttgtaattattaagcacccacaggtttttttcctagaatg 379

                                                                       
Query: 181 tgacctattatttacagaccttagagcttcagttgcaggtgtgagcttccacacctgaca 240
           |||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||
Sbjct: 380 tgacctattatttacagaccttagagcttcagttccaggtgtgagcttccacacctgaca 439

                                                                       
Query: 241 ggattagtatattggaataaacttttctaactatggctttatcttcttggaaaatatata 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 440 ggattagtatattggaataaacttttctaactatggctttatcttcttggaaaatatata 499

                                                                       
Query: 301 ggcctgcctcattgtatatcagagagactgtctcattacagtctcaatactctggaactg 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 500 ggcctgcctcattgtatatcagagagactgtctcattacagtctcaatactctggaactg 559

                                                                       
Query: 361 agccctaactctggtcttttatcagttattttacatttcctattttcatcctgctttaaa 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 560 agccctaactctggtcttttatcagttattttacatttcctattttcatcctgctttaaa 619

                                                                       
Query: 421 actttagatgatagcatattttatttttcttgattaattactagaatattttctctctgc 480
           |||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 620 actttagatgatagcatattttatttttcttgattaattactagaacattttctctctgc 679

                                                                       
Query: 481 ataccttcatataacagctcatcagaaagactgggaggaacttcagagtagcagggcatt 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 680 ataccttcatataacagctcatcagaaagactgggaggaacttcagagtagcagggcatt 739

                                        
Query: 541 tgttttgtatgagaaagggctgggtttga 569
           |||||||||||||||||||||||||||||
Sbjct: 740 tgttttgtatgagaaagggctgggtttga 768


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: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 569
Length of database: 968
Length adjustment: 10
Effective length of query: 559
Effective length of database: 958
Effective search space:   535522
Effective search space used:   535522
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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