BAC Information

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BAC

Clone NameMSMg01-438C07
Chromosome11 (Build37)
Map Location 99,583,432 - 99,732,548
singlet/doubletdoublet
Overlap geneLOC100040276, LOC665992, LOC665998, LOC670464, LOC670472, LOC670482, 2300006N05Rik, LOC670496, LOC629924, OTTMUSG00000002196, OTTMUSG00000002191
Upstream geneThrap4, Thra, Nr1d1, 4121402D02Rik, Casc3, Rapgefl1, Wipf2, Cdc6, Rara, Gjc1, Top2a, Igfbp4, Tns4, Ccr7, Smarce1, Krt222, Krt24, LOC100040200, Krt25, Krt26, Krt27, Krt10, A830036E02Rik, Krt20, Krt23, Krt39, Krt40, Krtap3-3, Krtap3-2, Krtap3-1, 2310043L02Rik, OTTMUSG00000004966, LOC435273, 2310040M23Rik, LOC100041412, LOC100041488, Krtap2-4, LOC100041477, A030010K20Rik, 1110033F04Rik, Krtap4-7, LOC546511, LOC100040248, 1110054P19Rik, LOC665922
Downstream geneKrtap9-1, LOC670533, 4733401H21Rik, LOC670550, LOC630936, OTTMUSG00000002177, LOC435286, A030006P16Rik, Krt33a, Krt33b, Krt34, Krt31, Krt32, Krt35, Krt36, Krt13, Krt15, Krt19, Krt9, Krt14, Ka11p, LOC666128, Krt16, Krt17, Krt42, LOC100041796, LOC100040491, Eif1, Gast, Hap1, LOC100041835, Jup, 1110036O03Rik, Fkbp10, Nt5c3l, Klhl10, Klhl11, Acly, Ttc25, Cnp1, Dnajc7, Nkiras2, A930006D11Rik, D11Lgp2e, Gcn5l2, Hspb9, Rab5c, LOC380728, Hcrt, Ghdc, Stat5b, Stat5a
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-438C07.T7 (MSMg01no438_c07.b1)MSMg01-438C07.TJ (MSMg01no438_c07.g1)
ACCAG528807AG528808
length753755
length of high quality
(start - end)		627 (41 - 667)556 (67 - 622)
definitionCHROMAT_FILE: MSMg01no438_c07.b1 PHD_FILE: MSMg01no438_c07.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:03:48 2005CHROMAT_FILE: MSMg01no438_c07.g1 PHD_FILE: MSMg01no438_c07.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:03:48 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(99,732,222 - 99,732,548)(99,583,432 - 99,583,987)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXTTCAGAGAATCCGCGGAATTCTA
CATCTCTTCTCGAAGGCAAACAGGAGAAGACTGACTCTTTCTCACAGGAT
AGAGCTTCAGAGCCCACCTTCACAGTGATGCCCTTTCTCCAACAAGGCCA
GACCTCCTAAGAGTGACACTTCCTGTAGGCCAAACATATTAAAACCATCA
CACTTCCCCTTAACATTCTCTTGTTTGTTCTCCCTCATTTTAGTGATCCC
TGACCTCAAGAATAGTGCCCCCTTCCTTCATGCCTTTAAAGTAATCTAGT
TCTGCATATGAGAATATCTGTGGTATTTGACTTTCTTGGTTACTTCATTT
AGTATTATAATGTCTAGGTCTATTCATTTTCCTGCAGAGGAAGTAATTTA
ATTCTCCTTTAGGGTTGAATAATATTCCCCAACACTGGTCATTGTGTCTA
TAGATCACATTTTCTCCCTCCATTATCTGTTGACGGGCTCCTAGGCTGCC
CCATGGTTTTACTATCATGGTTGGTGCCACTTGAAACATATTATTCATGT
GGAAATAATCATCCCTGGCAAAGTACATCTCTCGGGGATAACTCCTTCGC
CAAAGGTGAACTTTGCCAAGTTCAAGATCTAGAAAATACACATCCCTAAT
TCTTTCTATGCTTTAAGTAAAAATATTTTTAGACTTTATTTACTTGCATT
TTGGGTATATGTGTACTTTTCCTGCATGCGTGTCTGTGCACCTTCATGTG
CAG

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXCTTAAAATGTTTATTAGATGCCAAGAAGAAAAGG
AGAGAAATCCACACACTCGCATACACAAACTTGAAACAATGCACTTTTGT
AGAAGCCATTCCCATGATCATCTCTAACAATTTCACTTATTGGCATGCAC
ACAGACACATCCATCCATACATACATACTTACAAACATGCATACATACAT
AGACACATATGTCCATATATACATTCACATATATACATTCATAAAAAACA
GACAAATAGACAAACAGAGCATCTGACCTACAGACATTCACACACTGGGT
GGATCAAGCAAAGCTTTAGTGACCATGCTTTTCCAGGTTTACATACATGC
ACATAGATGCAGTTGGTGGATAAAGCAAAGCTGTAGTGAGCATGTCCTCC
CAACTTTATTTTTTCTCTTATCCTATTCATACTGCCTAAGAAAAAGTTCT
CAACATACTAAGAAGTATTGCCTCACTCACAAAAGAGGTAAAATTGTTTC
ACAGAAGGGAGGTGAAACAAAATTTTTGGTTACATGTTTTTGTATTAAAA
CTCCTACATGACTAATTGGTTTTTATGTATCTTTTATTTTGCAAGTTCAG
TATGAGTTCAAAGCAGTAGCTTTATCTATCTTTTATTGTATATGCTCATT
ATGAGTCCAAAGTAATAGTTTTGTCCAACCTTTGTCCCTTGAATTAATTA
TAATT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no438_c07.b1 MSMg01no438_c07.b1 CHROMAT_FILE:
MSMg01no438_c07.b1 PHD_FILE: MSMg01no438_c07.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:03:48 2005
         (627 letters)



>mm_chr11_99731522_99732548
          Length = 1027

 Score =  632 bits (327), Expect = 0.0
 Identities = 327/327 (100%)
 Strand = Plus / Minus

                                                                        
Query: 301  tacttcatttagtattataatgtctaggtctattcattttcctgcagaggaagtaattta 360
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1027 tacttcatttagtattataatgtctaggtctattcattttcctgcagaggaagtaattta 968

                                                                        
Query: 361  attctcctttagggttgaataatattccccaacactggtcattgtgtctatagatcacat 420
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 967  attctcctttagggttgaataatattccccaacactggtcattgtgtctatagatcacat 908

                                                                        
Query: 421  tttctccctccattatctgttgacgggctcctaggctgccccatggttttactatcatgg 480
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 907  tttctccctccattatctgttgacgggctcctaggctgccccatggttttactatcatgg 848

                                                                        
Query: 481  ttggtgccacttgaaacatattattcatgtggaaataatcatccctggcaaagtacatct 540
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 847  ttggtgccacttgaaacatattattcatgtggaaataatcatccctggcaaagtacatct 788

                                                                        
Query: 541  ctcggggataactccttcgccaaaggtgaactttgccaagttcaagatctagaaaataca 600
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 787  ctcggggataactccttcgccaaaggtgaactttgccaagttcaagatctagaaaataca 728

                                       
Query: 601  catccctaattctttctatgctttaag 627
            |||||||||||||||||||||||||||
Sbjct: 727  catccctaattctttctatgctttaag 701


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: 17
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: 627
Length of database: 1027
Length adjustment: 10
Effective length of query: 617
Effective length of database: 1017
Effective search space:   627489
Effective search space used:   627489
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= MSMg01no438_c07.g1 MSMg01no438_c07.g1 CHROMAT_FILE:
MSMg01no438_c07.g1 PHD_FILE: MSMg01no438_c07.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:03:48 2005
         (556 letters)



>mm_chr11_99583232_99584187
          Length = 956

 Score = 1029 bits (532), Expect = 0.0
 Identities = 550/556 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   cttaaaatgtttattagatgccaagaagaaaaggagagaaatccacacactcgcatacac 60
           ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct: 201 cttaaaatgtttattagatgccaaggagaaaaggagagaaatccacacactcgcatacac 260

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

                                                                       
Query: 121 ttattggcatgcacacagacacatccatccatacatacatacttacaaacatgcatacat 180
           |||||||||||||||||||||||||||||||| ||| |||||||||||||||||||||||
Sbjct: 321 ttattggcatgcacacagacacatccatccatccatccatacttacaaacatgcatacat 380

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

                                                                       
Query: 241 tagacaaacagagcatctgacctacagacattcacacactgggtggatcaagcaaagctt 300
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 tagacaaacagagcagctgacctacagacattcacacactgggtggatcaagcaaagctt 500

                                                                       
Query: 301 tagtgaccatgcttttccaggtttacatacatgcacatagatgcagttggtggataaagc 360
           ||||||||||||||||||| ||||||||||||||||||| ||||||||||||||||||||
Sbjct: 501 tagtgaccatgcttttccaagtttacatacatgcacatacatgcagttggtggataaagc 560

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

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

                                                                       
Query: 481 tttcacagaagggaggtgaaacaaaatttttggttacatgtttttgtattaaaactccta 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 tttcacagaagggaggtgaaacaaaatttttggttacatgtttttgtattaaaactccta 740

                           
Query: 541 catgactaattggttt 556
           ||||||||||||||||
Sbjct: 741 catgactaattggttt 756


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: 29
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: 556
Length of database: 956
Length adjustment: 10
Effective length of query: 546
Effective length of database: 946
Effective search space:   516516
Effective search space used:   516516
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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