BAC Information

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BAC

Clone NameMSMg01-540D03
Chromosome6 (Build37)
Map Location 56,991,677 - 57,060,188
singlet/doubletdoublet
Overlap geneV1rc30
Upstream geneLOC100041357, Pde1c, EG666688, Lsm5, 5830411G16Rik, LOC100042288, Kbtbd2, Fkbp9, Nt5c3, LOC100042327, V1rc21, V1rc19, V1rc20, EG434016, V1rc32
Downstream geneV1rc1, V1rc3, EG626397, V1rc4, V1rc5, V1rc7, V1rc6, LOC100041445, V1r-ps6, V1rc29, V1rc16, V1rc26, V1rc27, EG434017, LOC666822, Ppm1k, Herc5, Pigy, Lancl2, AW146242, V1rc28, LOC626582, V1rc23, V1rc24, LOC100041514, V1rc18, V1rc8, V1rc17, EG633683, LOC626649, LOC626659, LOC626672
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-540D03.T7 (MSMg01no540_d03.b1)MSMg01-540D03.TJ (MSMg01no540_d03.g1)
ACCAG606504AG606505
length718730
length of high quality
(start - end)		639 (50 - 688)638 (82 - 719)
definitionCHROMAT_FILE: MSMg01no540_d03.b1 PHD_FILE: MSMg01no540_d03.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:19:23 2005CHROMAT_FILE: MSMg01no540_d03.g1 PHD_FILE: MSMg01no540_d03.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:19:23 2005
singlet/doubletdoubletdoublet
BLAST hitpluralplural
Map location.(57,059,553 - 57,060,188)(56,991,677 - 56,992,282)
sequence
NNNAATCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXC
GCGGAATTCATCAGTATATGCAAATTTAGCACACTAGAAAATTATTGATA
AACACATTAGTTAACATGTGTTGTATATTCATTTGAGTTTCATATACATA
AATTAATACAGTCAGTTAACTTGAGAGAGGGGTAAAATTGGAAAATACAA
ACACAATTCAAAAGTGTCAATATTATAAACCTCTTCGGCAAAGCAATAAA
TAGCTGTCACTTGGTTTTTCACACTTTAAGTGACCTCAGGTGTTTTGTTA
CAGAGATGGAAGACTAACACAGTTGATCATACCTAGGTGGAACCATGATC
TTGGAATTCTTGGAGCACTCATGAAGGATAATCCTCTGTCAGGTATACTC
TTTAAAAGGTTGAGGATGGACTTGCATTTTAAAAGTATATCCATGTAGAT
TTATGGAAAAAGTGATTAATCATCTTCACCTTATGAGCCTTTTCTGTCTT
TTTCCCTCCTCTTATTGGACCCTGTCCTCTTCCAATTATCCACCTCTACT
GTTACAGGTATAATAAGAGATGAAATTGAGTGACATCTATGTTCTTTTAT
TAATTGTTATACTGGTATTATATGTCTACAAGCACCTTTTATGTTTGCTT
GTGATAAAATTTAGCTTAAAAGTAAAATTCTAAGCAGATAATTCTCTACT
CATTTATTATAGAATCCG

TTTTTACTATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTCTGCTTAGAATACTAACT
TTTGAGTCATACTGTATGATAAGCACACAACATATGCTTGTAGACAAAGA
GGCATCATTGTAATGATTAATAAAAATTCACATATTTCACATAATGTGAT
CTATGAATATGTATGTGACAGTAAGATAGAGGTATTTGAATAAGGATAGG
GCAAGCTGAATGGTGGCTAAAGAGAGGAAAGGCCGAAGTAGTGAAGATCA
TCACTGGGTATTATATATTAATTGAAAGTATCATAACACCCATCAGTTTT
TACAGTGGATGTGCACTGATATATATGTAAAATTAGCCCCATATGCAATA
TTTTAAGGAACATATTTGAAATAGGAATTTTATATAATTCAGTTTTTCAC
TCAAGTGATGTACTGGTGTTCTTGTTAGCAGCCCTGGCACACACTATGCT
ATTGTTCTATTCTTAGGCCCAATAGTCCAATAATTTCACACACACACACA
CACACACACACACACACACACACACACACACACACACACACACACACACA
CACACATGCACACATGTACAAACACACATACACACACACATACACACATA
TACACACACATACACACACATATACACATACACACATTTCCAATGACTAT
TCTTATATCTTTCACAAACTAATGTTACGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no540_d03.b1 MSMg01no540_d03.b1 CHROMAT_FILE:
MSMg01no540_d03.b1 PHD_FILE: MSMg01no540_d03.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:19:23 2005
         (639 letters)



>mm_chr6_57059350_57060388
          Length = 1039

 Score = 1214 bits (628), Expect = 0.0
 Identities = 634/636 (99%)
 Strand = Plus / Minus

                                                                       
Query: 4   ggaattcatcagtatatgcaaatttagcacactagaaaattattgataaacacattagtt 63
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 839 ggaattcatcagtatatgcaaatttagcacactagaaaattattgataaacacattagtt 780

                                                                       
Query: 64  aacatgtgttgtatattcatttgagtttcatatacataaattaatacagtcagttaactt 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 779 aacatgtgttgtatattcatttgagtttcatatacataaattaatacagtcagttaactt 720

                                                                       
Query: 124 gagagaggggtaaaattggaaaatacaaacacaattcaaaagtgtcaatattataaacct 183
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 719 gagagaggggtaaaattggaaaatacaaacgcaattcaaaagtgtcaatattataaacct 660

                                                                       
Query: 184 cttcggcaaagcaataaatagctgtcacttggtttttcacactttaagtgacctcaggtg 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 659 cttcggcaaagcaataaatagctgtcacttggtttttcacactttaagtgacctcaggtg 600

                                                                       
Query: 244 ttttgttacagagatggaagactaacacagttgatcatacctaggtggaaccatgatctt 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 599 ttttgttacagagatggaagactaacacagttgatcatacctaggtggaaccatgatctt 540

                                                                       
Query: 304 ggaattcttggagcactcatgaaggataatcctctgtcaggtatactctttaaaaggttg 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 539 ggaattcttggagcactcatgaaggataatcctctgtcaggtatactctttaaaaggttg 480

                                                                       
Query: 364 aggatggacttgcattttaaaagtatatccatgtagatttatggaaaaagtgattaatca 423
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 479 aggatggacttgcattttaaaagtatatccatgtagatttatggaaaaagtgattaatca 420

                                                                       
Query: 424 tcttcaccttatgagccttttctgtctttttccctcctcttattggaccctgtcctcttc 483
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 419 tcttcaccttatgagccttttctgtctttttccctcctcttattggaccctgtcctcttc 360

                                                                       
Query: 484 caattatccacctctactgttacaggtataataagagatgaaattgagtgacatctatgt 543
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 359 caattatccacctctactgttacaggtataataagagatgaaattgagtgacatctatgt 300

                                                                       
Query: 544 tcttttattaattgttatactggtattatatgtctacaagcaccttttatgtttgcttgt 603
           |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 299 tcttttattaattgttatactgatattatatgtctacaagcaccttttatgtttgcttgt 240

                                               
Query: 604 gataaaatttagcttaaaagtaaaattctaagcaga 639
           ||||||||||||||||||||||||||||||||||||
Sbjct: 239 gataaaatttagcttaaaagtaaaattctaagcaga 204


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: 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: 639
Length of database: 1039
Length adjustment: 10
Effective length of query: 629
Effective length of database: 1029
Effective search space:   647241
Effective search space used:   647241
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_d03.g1 MSMg01no540_d03.g1 CHROMAT_FILE:
MSMg01no540_d03.g1 PHD_FILE: MSMg01no540_d03.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:19:23 2005
         (638 letters)



>mm_chr6_56991477_56992514
          Length = 1038

 Score = 1098 bits (568), Expect = 0.0
 Identities = 605/638 (94%), Gaps = 32/638 (5%)
 Strand = Plus / Plus

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

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

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

                                                                       
Query: 181 ggtggctaaagagaggaaaggccgaagtagtgaagatcatcactgggtattatatattaa 240
           |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 381 ggtggctaaagagaggaaaggctgaagtagtgaagatcatcactgggtattatatattaa 440

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

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

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

                                                                       
Query: 421 ttgttctattcttaggcccaatagtccaataatttcacacacacacacacacacacacac 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 ttgttctattcttaggcccaatagtccaataatttcacacacacacacacacacacacac 680

                                                                       
Query: 481 acacacacacacacacacacacacacacacacacacacacacacatgcacacatgtacaa 540
           |||||||||||||                                |||||||||||||||
Sbjct: 681 acacacacacaca--------------------------------tgcacacatgtacaa 708

                                                                       
Query: 541 acacacatacacacacacatacacacatatacacacacatacacacacatatacacatac 600
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 709 acacacatacacacacacatacacacatatacacacacatacacacacatatacacatac 768

                                                 
Query: 601 acacatttccaatgactattcttatatctttcacaaac 638
           ||||||||||||||||||||||||||||||||||||||
Sbjct: 769 acacatttccaatgactattcttatatctttcacaaac 806


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: 70
Number of extensions: 27
Number of successful extensions: 27
Number of sequences better than 10.0: 1
Number of HSP's gapped: 18
Number of HSP's successfully gapped: 1
Length of query: 638
Length of database: 1038
Length adjustment: 10
Effective length of query: 628
Effective length of database: 1028
Effective search space:   645584
Effective search space used:   645584
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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