BAC Information

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BAC

Clone NameMSMg01-435M18
Chromosome6 (Build37)
Map Location 90,979,996 - 91,117,186
singlet/doubletdoublet
Overlap geneNup210, Hdac11
Upstream geneV1ra3, V1rb2, V1rb1, V1ra1, LOC625050, V1ra7, V1ra8, V1rb3, LOC100043191, V1r-ps5, V1ra9, BC048671, Chst13, Uroc1, Zxdc, Ccdc37, Klf15, Aldh1l1, Slc41a3, Iqsec1, LOC100043646, EG665685
Downstream geneFbln2, LOC665716, Wnt7a, LOC100043659, LOC625420, Chchd4, Tmem43, Xpc, Lsm3, Slc6a6, Grip2, C130022K22Rik, 4930590J08Rik, Fgd5, Nr2c2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-435M18.T7 (MSMg01no435_m18.b1)MSMg01-435M18.TJ (MSMg01no435_m18.g1)
ACCAG527018AG527019
length800778
length of high quality
(start - end)		426 (42 - 467)377 (72 - 448)
definitionCHROMAT_FILE: MSMg01no435_m18.b1 PHD_FILE: MSMg01no435_m18.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:00:40 2005CHROMAT_FILE: MSMg01no435_m18.g1 PHD_FILE: MSMg01no435_m18.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:00:40 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(91,116,765 - 91,117,186)(90,979,996 - 90,980,372)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATT
CCATCTTCTCTAGTACCTTTTACAGGTGAGCTGCCCCAGGCCCAGAGAGG
ACCAACAACATGCCCAGAAAATATAACAAGAAAACAGTTAGCAGCACCAT
TAGTGAAATCCAGGCTTCATTAGGACCTAGAGGCTCAGTTAACCAGGCCC
TAGTTTCCATGATAGGAGTATCACTGAGGTCCTCCATGAACCGGGAACTA
TGCTACAGACACACATGGCATAAACTACCCATGTCCCTATATAACTGGGT
ATTCTAACATCATGGCTATGCCAGGTCTAATTGGGTACCTGGCAATGCAA
GCAGGAAGAGTCATGGCCCCTGGCCATGTGGAGCTCACAAAAAGGGATCC
TCTAGGGTCCTGCACAAGCCAGCAGCTTCTTCATAAGACAACTATGCAAC
AGCAAAGGAAAGGCTGCTAGGACAAAGCGTCTTCAACTGTCCAGGACTGT
GAAGACAGACTGTATAGACCCCCCCGAACCCGAAAGTTTGGGCCCCCAAA
ACCCTGTTGGGGGGCTTAATCCTGGACTATTCCCCCCGCCCAGGACAAAG
CCCTGGTCCCTTGGCCATATCCCCCAAAAAAGGGCCCTTTTTTGAAATGG
GCGTGGGGCCTTCAATTCCCTCTCGATTCTGCCCGGGTAATCTTTCTGAG
GAGTGCCCTGCTCTTTTTTGTGGTGTGAAATATCTCCGCCTTTTGCGTAT
ATTAATGTGTTTGTTCTCTAATTCCCTCTTTTTCCCTTTTCTATCGTTTN


ACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXCTCAGCTGGAGGGTGAATCACTTTTACAC
CTGAGAGAGTGTCACGTCTGAGCTTTTACAGATTGTGTGAAAGGCAATCT
TACCTTTACAGCGACAAGGATAGTCTGGTTGGTGCCGAAAGGCTCCTGTG
CAATCACCTCGAGGGTGGACACTCCAATTCCAGAGCCCGACACCAGAAAC
CCCTTCTCATCAGTGTGAACAATGGGAGCCTTCTCAGGCCCATCAAGGAC
ACGGTAGCTCAGAATGTCTGTACCATCCCTTTGGAAAGAAAGATGATCTG
TTTTTATGATGCATGGAGAAGCTATGGCACAGGGAGGCCCAGCAAGTTAA
TATGAAGATTTCACATCTGTGACTTACCAGGCAGGACCTCGTGGTCCTAT
CAATCATCCACAGAAGTCTAATTCGTAATACTCACAACTTTGATAAAAGT
ATAAAGTCCAGGCCCCAGTCTTTTTTTTTGTTTACCCCTGATCTCTCAAG
TCTCTTAATCACATTTTGTAAATTTTATTTTTCTTATGTTATTCCTCTTC
TTTTTCTCGTCACCCCATTTTTGTTCCCCTTCCTCTTTTCCTCCCTCCCC
TTTTTTTTCTCCCCCCCACCTTTTTCTTCTCCTTAATATCACTCTTTCTC
TCCTCCTACTTATTTATCTGTTTCCTTTATTCACATTCTACTCCTTCTTT
ACTCATTATTCCCCTTGTACTATTTTTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no435_m18.b1 MSMg01no435_m18.b1 CHROMAT_FILE:
MSMg01no435_m18.b1 PHD_FILE: MSMg01no435_m18.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:00:40 2005
         (426 letters)



>mm_chr6_91116561_91117386
          Length = 826

 Score =  801 bits (414), Expect = 0.0
 Identities = 420/422 (99%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattccatcttctctagtaccttttacaggtgagctgccccaggcccagagaggaccaa 64
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 626 gaattccatcttcactagtaccttttacaggtgagctgccccaggcccagagaggaccaa 567

                                                                       
Query: 65  caacatgcccagaaaatataacaagaaaacagttagcagcaccattagtgaaatccaggc 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 566 caacatgcccagaaaatataacaagaaaacagttagcagcaccattagtgaaatccaggc 507

                                                                       
Query: 125 ttcattaggacctagaggctcagttaaccaggccctagtttccatgataggagtatcact 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 506 ttcattaggacctagaggctcagttaaccaggccctagtttccatgataggagtatcact 447

                                                                       
Query: 185 gaggtcctccatgaaccgggaactatgctacagacacacatggcataaactacccatgtc 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 446 gaggtcctccatgaaccgggaactatgctacagacacacatggcataaactacccatgtc 387

                                                                       
Query: 245 cctatataactgggtattctaacatcatggctatgccaggtctaattgggtacctggcaa 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 386 cctatataactgggtattctaacatcatggctatgccaggtctaattgggtacctggcaa 327

                                                                       
Query: 305 tgcaagcaggaagagtcatggcccctggccatgtggagctcacaaaaagggatcctctag 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 326 tgcaagcaggaagagtcatggcccctggccatgtggagctcacaaaaagggatcctctag 267

                                                                       
Query: 365 ggtcctgcacaagccagcagcttcttcataagacaactatgcaacagcaaaggaaaggct 424
           ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 266 ggtcctgcacaagccagcagcttcttcataacacaactatgcaacagcaaaggaaaggct 207

             
Query: 425 gc 426
           ||
Sbjct: 206 gc 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: 18
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: 426
Length of database: 826
Length adjustment: 9
Effective length of query: 417
Effective length of database: 817
Effective search space:   340689
Effective search space used:   340689
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= MSMg01no435_m18.g1 MSMg01no435_m18.g1 CHROMAT_FILE:
MSMg01no435_m18.g1 PHD_FILE: MSMg01no435_m18.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:00:40 2005
         (377 letters)



>mm_chr6_90979796_90980572
          Length = 777

 Score =  683 bits (353), Expect = 0.0
 Identities = 371/377 (98%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  attgtgtgaaaggcaatcttacctttacagcgacaaggatagtctggttggtgccgaaag 120
           |  |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 acagtgtgaaaggcaatcttacctttacagcgacaaggatagtctggttggtgccgaaag 320

                                                                       
Query: 121 gctcctgtgcaatcacctcgagggtggacactccaattccagagcccgacaccagaaacc 180
           |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 gctcctgtgcaatcacttcgagggtggacactccaattccagagcccgacaccagaaacc 380

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

                                                                       
Query: 241 gaatgtctgtaccatccctttggaaagaaagatgatctgtttttatgatgcatggagaag 300
           ||||| ||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 gaatggctgcaccatccctttggaaagaaagatgatctgtttttatgatgcatggagaag 500

                                                                       
Query: 301 ctatggcacagggaggcccagcaagttaatatgaagatttcacatctgtgacttaccagg 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| 
Sbjct: 501 ctatggcacagggaggcccagcaagttaatatgaagatttcacatctgtgacttaccaga 560

                            
Query: 361 caggacctcgtggtcct 377
           |||||||||||||||||
Sbjct: 561 caggacctcgtggtcct 577


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: 16
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: 377
Length of database: 777
Length adjustment: 9
Effective length of query: 368
Effective length of database: 768
Effective search space:   282624
Effective search space used:   282624
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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