BAC Information

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BAC

Clone NameMSMg01-538P16
Chromosome4 (Build37)
Map Location 105,885,196 - 106,058,858
singlet/doubletdoublet
Overlap geneUsp24
Upstream genePpap2b, LOC433742, LOC665518, LOC434381, Ppia-ps4_954.1, Map1lc3, LOC384039
Downstream geneLOC100039616, Pcsk9, Bsnd, Tmem61, Dhcr24, BC055111, Ttc22, Pars2, Ttc4, Gm1027, BC026682, Acot11, Ssbp3, Mrpl37, 2810410C14Rik, Cdcp2, 2210012G02Rik, Tmem59, LOC546840, Lrrc42, 2900042B11Rik, Dio1, Yipf1, LOC652920, Tmem48
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-538P16.T7 (MSMg01no538_p16.b1)MSMg01-538P16.TJ (MSMg01no538_p16.g1)
ACCAG605580AG605581
length750750
length of high quality
(start - end)		674 (35 - 708)581 (64 - 644)
definitionCHROMAT_FILE: MSMg01no538_p16.b1 PHD_FILE: MSMg01no538_p16.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:17:46 2005CHROMAT_FILE: MSMg01no538_p16.g1 PHD_FILE: MSMg01no538_p16.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:17:46 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(106,058,183 - 106,058,858)(105,885,196 - 105,885,783)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCTTTTAC
TGCTCATTTCCCCATCTTTATCTTCAAGGTCCCTACCTAGAGTCTCTTCT
ATGCTATTTTTCCACACAGGACTTCTAAGAACCATCTTTTGCTCAAACTT
CAAGCTGGTCTTCCTTCTTCCTGCCTGCGTGAGAACCTTTCTTCACTTTG
ACCTGATCTCCCTGAGTAGACAGGAGACGAGCAGTGCACAGTCCCGCTTG
CCCTCGCCCTGCCTCCCCTCGCACTGCAGCACTTTCTCTGCTGCTGCTCT
AAGGACCAGTCTACTCAGTCTCCCTCCCAGCTCACACACAGATGGCTTTT
GTGAAGCGTCTTCCAGGCACCGCCAGCCTCCAGGCTAACTGCTGCTACTC
TCCACTTAAGCACAAGCCTCTCAAGAGAAGGGTCCCACCCAAGCAGCTCC
ACTTCAGTAGCACCAATGTTGCTGCAACACAGGACATAAACTCGTGGACG
ACGCAAGAAAGAGAGGCGGCCGCTTCAACTTCATTTTCTTGAAAATCTCC
CTCCCTTGCAGAGGGGAGAGACATTCTTCACTAAGTTTTCCCAAGTAATG
AAAAGTTAGAAAATGAATAGAAACATCCTAAGACATCCCGGTGCCATTCC
CACCTGCTCTAACCTCATAATGCCTCACAGAGGTCACTGGAGGAATAAGC
AAGGCCTACGTGCGAGAAATAAACCACCAGGATATATGACCAGGATGGGT


XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXTCTAGCTAATGAAAAGAGGTATTGTTGCATCTCTGCT
TCCCAGCAGTTCTTTGGCTTTTCTGGCCCAATTTAACTTCAGCAAGATCT
TCTTTCCCTCACTTGGAAAATAACACTAAGAGAAGCTAACATTCATTGAG
CTTTTGTTAAGGCCAGCCATTTTTCTAAATGCATAGAAGTGACCTGAAGG
AAATCTCCGCTTAGTGCTTCTGTGTCCTTGTCACCATGCTTAAGAGGAGG
GGAGAGACTTCTCAGAATCTTGTCCCCAGGACTTCAGTAGCTCATTGTAT
GGGTAAGAATCAATGGAGAGGAAGATTGGTCATAAAGAGGTGAGAAGTTC
CTGGGATACATTGGGCTTTTCTCAAGTGGGGTCTGTCCCCCTCTTTTGAG
CTTGTATTGGCTCGTCTGGCACCAGATAAAGGATAGAAACAGTGTGATGC
CAAGGCTGTGGAGAGCCTGTTACAGTGAGTCAAAGGAGAGTGTGGGTAGT
TGTGGGTGCTCTTGTTTGAGCAGACCCACGATGGCCTGCTGCAGTACAAC
TCTGAATCATTATCTCCCATCAAAATAATGGAGTCTCTGGCCTAGGTGAA
GACCTAACAGTCCAGTTGGGCAGATAAATCAGCTGGCTAAAGGAGAATCC
TTTCGCGGAGGCAGGACCACCCCTCAGGAATTGGGTTCACCTTAAGCCAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no538_p16.b1 MSMg01no538_p16.b1 CHROMAT_FILE:
MSMg01no538_p16.b1 PHD_FILE: MSMg01no538_p16.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:17:46 2005
         (674 letters)



>mm_chr4_106057980_106059058
          Length = 1079

 Score = 1234 bits (638), Expect = 0.0
 Identities = 665/676 (98%), Gaps = 5/676 (0%)
 Strand = Plus / Minus

                                                                       
Query: 4   ggaattcttttactgctcatttccccatctttatcttcaaggtccctacctagagtctct 63
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 879 ggaattcttttactgctcatttccccatctttatcttcaaggtccctacctagagtctct 820

                                                                       
Query: 64  tctatgctatttttccacacaggacttctaagaaccatcttttgctcaaacttcaagctg 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 819 tctatgctatttttccacacaggacttctaagaaccatcttttgctcaaacttcaagctg 760

                                                                       
Query: 124 gtcttccttctt----cctgcctgcgtgagaacctttcttcactttgacctgatctccct 179
           ||||||||||||    ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 759 gtcttccttcttcctgcctgcctgcgtgagaacctttcttcactttgacctgatctccct 700

                                                                       
Query: 180 gagtagacaggagacgagcagtgcacagtcccgcttgccctcgccctgcctcccctcgca 239
           |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct: 699 gagtagacaggagacgagcagtgcacggtcccgcttgccctcgccctgcctcccctcgca 640

                                                                       
Query: 240 ctgcagcactttctctgctgctgctctaaggaccagtctactcagtctccctcccagctc 299
           |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 639 ctgcagcactctctctgctgctgctctaaggaccagtctactcagtctccctcccagctc 580

                                                                       
Query: 300 acacacagatggcttttgtgaagcgtcttccaggcaccgccagcctccaggctaactgct 359
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 579 acacacagatggcttttgtgaagcgtcttccaggcaccgccagcctccaggctaactgct 520

                                                                       
Query: 360 gctactctccacttaagcacaagcctctcaagagaagggtcccacccaagcagctccact 419
           ||||||||||||||||||||||||||||| ||||||||||||||||| ||||||||||||
Sbjct: 519 gctactctccacttaagcacaagcctctcgagagaagggtcccacccgagcagctccact 460

                                                                       
Query: 420 tcagtagcaccaatgttgctgcaacacaggacataaactcgtggacgacgcaagaaagag 479
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 459 tcagtagcaccaatgttgctgcaacacaggacataaactcgtggacgacgcaagaaagag 400

                                                                       
Query: 480 aggcggccgcttcaacttca-ttttcttgaaaatctccctcccttgcagaggggagagac 538
           |||||||||||||||||| | |||||||||||||||||||||||||||||||||||||||
Sbjct: 399 aggcggccgcttcaactttacttttcttgaaaatctccctcccttgcagaggggagagac 340

                                                                       
Query: 539 attcttcactaagttttcccaagtaatgaaaagttagaaaatgaatagaaacatcctaag 598
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 339 attcttcactaagttttcccaagtaatgaaaagttagaaaatgaatagaaacatcctaag 280

                                                                       
Query: 599 acatcccggtgccattcccacctgctctaacctcataatgcctcacagaggtcactggag 658
           ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 279 acatcacggtgccattcccacctgctctaacctcataatgcctcacagaggtcactggag 220

                           
Query: 659 gaataagcaaggccta 674
           ||||||||||||||||
Sbjct: 219 gaataagcaaggccta 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: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 674
Length of database: 1079
Length adjustment: 10
Effective length of query: 664
Effective length of database: 1069
Effective search space:   709816
Effective search space used:   709816
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= MSMg01no538_p16.g1 MSMg01no538_p16.g1 CHROMAT_FILE:
MSMg01no538_p16.g1 PHD_FILE: MSMg01no538_p16.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:17:46 2005
         (581 letters)



>mm_chr4_105885003_105885983
          Length = 981

 Score = 1021 bits (528), Expect = 0.0
 Identities = 570/588 (96%), Gaps = 7/588 (1%)
 Strand = Plus / Plus

                                                                       
Query: 1   tctagctaatgaaaagaggtattgttgcatctctgcttcccagcagttctttggcttttc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 194 tctagctaatgaaaagaggtattgttgcatctctgcttcccagcagttctttggcttttc 253

                                                                       
Query: 61  tggcccaatttaacttcagcaagatcttctttccctcacttggaaaataacactaagaga 120
           ||||||||||||||||| ||||||||||||||||||||| | || |||||||||||||||
Sbjct: 254 tggcccaatttaacttcggcaagatcttctttccctcacctagacaataacactaagaga 313

                                                                       
Query: 121 agctaacattcattgagcttttgttaaggccagccatttttctaaatgcatagaagtgac 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 314 agctaacattcattgagcttttgttaaggccagccatttttctaaatgcatagaagtgac 373

                                                                       
Query: 181 ctgaaggaaatctccgcttagtgcttctgtgtccttgtcaccatgcttaagaggagggga 240
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 374 ctgaaggaaatctccgcttagtgcttctgtttccttgtcaccatgcttaagaggagggga 433

                                                                       
Query: 241 gagacttctcagaatcttgtccccaggacttcagtagctcattgtatgggtaagaatcaa 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 434 gagacttctcagaatcttgtccccaggacttcagtagctcattgtatgggtaagaatcaa 493

                                                                       
Query: 301 tggagaggaagattggtcataaagaggtgagaagttcctgggatacattgggcttttctc 360
           ||||||||||||||||||||||||||||||| |||||||||||||||||||| |||||||
Sbjct: 494 tggagaggaagattggtcataaagaggtgaggagttcctgggatacattgggattttctc 553

                                                                       
Query: 361 aagtggggtctgtccccctcttttgagcttgtattggctcgt-------ctggcaccaga 413
           ||||||||||||||||||||||||||||||||||||||||||       ||| |||||||
Sbjct: 554 aagtggggtctgtccccctcttttgagcttgtattggctcgttggatgtctgacaccaga 613

                                                                       
Query: 414 taaaggatagaaacagtgtgatgccaaggctgtggagagcctgttacagtgagtcaaagg 473
           |||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 614 taaaggatagaaacagtgtgatgccaaggctgtggagagcctgttacaatgagtcaaagg 673

                                                                       
Query: 474 agagtgtgggtagttgtgggtgctcttgtttgagcagacccacgatggcctgctgcagta 533
           |||||| ||||||||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct: 674 agagtgggggtagttgtgggtgctcttgtttgagcagacccacgatggcctgctacagta 733

                                                           
Query: 534 caactctgaatcattatctcccatcaaaataatggagtctctggccta 581
           ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 734 caactctgaatcattatctcccatcaaaataatggagtctctggccta 781


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: 24
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: 581
Length of database: 981
Length adjustment: 10
Effective length of query: 571
Effective length of database: 971
Effective search space:   554441
Effective search space used:   554441
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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