BAC Information

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BAC

Clone NameMSMg01-336I13
Chromosome13 (Build37)
Map Location 45,741,407 - 45,886,377
singlet/doubletdoublet
Overlap geneAtxn1
Upstream geneJarid2, Dtnbp1, Hsp25-ps1, LOC100039502, LOC667204, LOC100039533, Mylip, Gmpr
Downstream gene5033430I15Rik, ENSMUSG00000062282, Gm1574, Rbm24, Cap2, C78339, Nup153, Kif13a
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-336I13.T7 (MSMg01no336_i13.b1)MSMg01-336I13.TJ (MSMg01no336_i13.g1)
ACCAG451529AG451530
length748740
length of high quality
(start - end)		519 (42 - 560)502 (70 - 571)
definitionCHROMAT_FILE: MSMg01no336_i13.b1 PHD_FILE: MSMg01no336_i13.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:24:37 2005CHROMAT_FILE: MSMg01no336_i13.g1 PHD_FILE: MSMg01no336_i13.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:24:37 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(45,885,995 - 45,886,377)(45,741,407 - 45,741,908)
sequence
TXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATT
CTTCATCATCACAGCACATACTTCAAGGTACACATTTGAAAAAGCGAATA
GTTCTAAAGCACATGAATACTAAGTTTTTCTATACATGTCATGCATATAC
ATGACAAAAGTTATCTTTAAATTATGCACAATAATACTGAAGATGTAAGA
TATGACAGTAGGTTGTGATGGGCACTGGTGCTTTGGGGCTTCGATTAAGT
AAAATAGGACTCTGCCACATAAACAGCTGCAAAACCACAGCAGTGGACCT
GAAAGCCAAGGTGGCTGCTAAGAGATTAACAGGAGGGTAGCAAATACCAT
GTGTACACACGAGACAGAGGGATGATGCATGTGTCAAGTAGGAAAGAGTG
AGAGAGCGTGGGATTTCAGGATGCTTTTCAGAATTTGTAGGTTGTATGTT
TCTAGGGTTTTCTTTTTGGTATTTTCAAATCAGCGCTAACCTGGGTAACT
AAAAGAACGGAAAACAAACGTGTAAATAGTTGGGAGCTGCTTTAATTTCA
TTCTTTAACCACGAAGAATTGAAGTGATTGTTTCATGGGGATGCATTTAC
CTTACGATTTTATGAACTATAGCTTCATAACCACCGACACTCACCCCGAC
ACCCCCCCGGACACCCACCCCGACACCCCTCCCGACAGAAACCCCCCCCC
TCCGAAACGAACACACCCCCCCCAAAAGAAACACACCCCTGACCCCCN

ACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXTCTGCCTTGCATTTTTATGAATATTGCAACT
ATCTACCAAACAACTCTGGGCTTCAAAACGAGACCCAGGACGTGTTCTCA
AAGAAGCCTAATCAAAACGATCAATGTCAAGGTTGGAGAGACAGCTCAGA
GGTTTAGAACACTTACTGCATTTGCAAAGGAGCCAAGCTTAGTTCTCAGC
ATCTACGTGGTTGTTCAGGCAGAGTCTGTGACTCTAGTTTCTGGGGACCT
GATGCCTTCTTTTGTCTTCCATGGGTTCTGACCATGCATACAGTGTATGC
ATATATATTCTGGCAAACATTCATACACATAAAACACAAATAAACGAACC
TTGAAAAAAGATGTTCTGTGTCTTATCCTCAAAGGAAATTACTCCCCATC
AAACAGATCTCTGTATAGAGACCAGAACTAAACAATGATAGAATATTATT
CTCACCTAAACAACACCATCAAATTCCCCACTGCCCCAGTGCTGGACTCC
ACCTCTCCAATCCAGCAGAGGGCACGGGGAGTTTGAGAAGAACGGAGAAA
CTGCTCATCTTGAGAAGATTTTAAAGGTTAGGTCCTCATTCTTTAGCCTA
GTTAACCATGCTAGAAAGGCCTTTCTTTTCTGTCCGAAGCTATTGGAGGG
GTTGCCACTTTTTTCCCATGGCCCCAGAAAAAAGCTGGGT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no336_i13.b1 MSMg01no336_i13.b1 CHROMAT_FILE:
MSMg01no336_i13.b1 PHD_FILE: MSMg01no336_i13.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:24:37 2005
         (519 letters)



>mm_chr13_45885995_45886913
          Length = 919

 Score =  717 bits (371), Expect = 0.0
 Identities = 380/383 (99%)
 Strand = Plus / Minus

                                                                       
Query: 4   ggaattcttcatcatcacagcacatacttcaaggtacacatttgaaaaagcgaatagttc 63
           |||||||||||||| |||||||||||||||||||||||||||||||||||| ||||||||
Sbjct: 383 ggaattcttcatcaccacagcacatacttcaaggtacacatttgaaaaagcaaatagttc 324

                                                                       
Query: 64  taaagcacatgaatactaagtttttctatacatgtcatgcatatacatgacaaaagttat 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 323 taaagcacatgaatactaagtttttctatacatgtcatgcatatacatgacaaaagttat 264

                                                                       
Query: 124 ctttaaattatgcacaataatactgaagatgtaagatatgacagtaggttgtgatgggca 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 263 ctttaaattatgcacaataatactgaagatgtaagatatgacagtaggttgtgatgggca 204

                                                                       
Query: 184 ctggtgctttggggcttcgattaagtaaaataggactctgccacataaacagctgcaaaa 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 203 ctggtgctttggggcttcgattaagtaaaataggactctgccacataaacagctgcaaaa 144

                                                                       
Query: 244 ccacagcagtggacctgaaagccaaggtggctgctaagagattaacaggagggtagcaaa 303
           ||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct: 143 ccacagcagtggacctgaaagccaaggcggctgctaagagattaacaggagggtagcaaa 84

                                                                       
Query: 304 taccatgtgtacacacgagacagagggatgatgcatgtgtcaagtaggaaagagtgagag 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 83  taccatgtgtacacacgagacagagggatgatgcatgtgtcaagtaggaaagagtgagag 24

                                  
Query: 364 agcgtgggatttcaggatgcttt 386
           |||||||||||||||||||||||
Sbjct: 23  agcgtgggatttcaggatgcttt 1


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: 19
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: 519
Length of database: 919
Length adjustment: 10
Effective length of query: 509
Effective length of database: 909
Effective search space:   462681
Effective search space used:   462681
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= MSMg01no336_i13.g1 MSMg01no336_i13.g1 CHROMAT_FILE:
MSMg01no336_i13.g1 PHD_FILE: MSMg01no336_i13.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:24:37 2005
         (502 letters)



>mm_chr13_45741207_45742108
          Length = 902

 Score =  963 bits (498), Expect = 0.0
 Identities = 501/502 (99%)
 Strand = Plus / Plus

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

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

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

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

                                                                       
Query: 241 ttttgtcttccatgggttctgaccatgcatacagtgtatgcatatatattctggcaaaca 300
           ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 ttttggcttccatgggttctgaccatgcatacagtgtatgcatatatattctggcaaaca 500

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

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

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

                                 
Query: 481 cacctctccaatccagcagagg 502
           ||||||||||||||||||||||
Sbjct: 681 cacctctccaatccagcagagg 702


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: 23
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: 502
Length of database: 902
Length adjustment: 10
Effective length of query: 492
Effective length of database: 892
Effective search space:   438864
Effective search space used:   438864
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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