BAC Information

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BAC

Clone NameMSMg01-481N09
Chromosome3 (Build37)
Map Location 52,725,118 - 52,947,710
singlet/doubletdoublet
Overlap geneCog6, Lhfp, LOC100039808
Upstream geneLOC433587, LOC100039788, LOC671890, Olfr1398-ps1, Foxo1, LOC100039762, LOC100039832
Downstream geneLOC666413, 8030451K01Rik, 2810046L04Rik, Stoml3, Frem2, Ppia-ps3_416.1, LOC621155, Ufm1, EG666444, LOC100039937
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-481N09.T7 (MSMg01no481_n09.b1)MSMg01-481N09.TJ (MSMg01no481_n09.g1)
ACCAG562148AG562149
length775767
length of high quality
(start - end)		249 (65 - 313)655 (68 - 722)
definitionCHROMAT_FILE: MSMg01no481_n09.b1 PHD_FILE: MSMg01no481_n09.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:02:36 2005CHROMAT_FILE: MSMg01no481_n09.g1 PHD_FILE: MSMg01no481_n09.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:02:36 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(52,947,462 - 52,947,710)(52,725,118 - 52,725,772)
sequence
XXXXXXXXXXXXXXXXXXXXTACTATATTCAGAAATCCGCGGAATTCCAT
GGCTTTTCCCACTCCACTCTACCTGGTGGAGCGCTCAATAAACACTATTG
ACAGCCTCCATTTGGGTAGGGAATTTCCACCTGCTGGAGTGCTTTTTGTT
CCCACAGCACAGCTACCTGAGGCAAAAACAGTTGCTCTAAAGAGAGGGTA
GAGCTTTTGCTGTCAACAGTATAGATCAGATCAGCTAAATGCATTTCAAT
CCTGTTCTATTGTGTTTAAATGGGAGGGAGATATACAAGCCCATCTCAGG
TAGTGTCAACAGACTTCTCAGAGGCAGACAGAGGCGATTGTCAGCCATTG
ATGGGTTCTGGGATATCGGTATAAACTGTATCATCCCAAGAGGTTTACTG
AGTACCACCGCCAACTGCGGTCAGGGTATCTTGATTCTTTCCAGATACAG
AGTTGCCAAGATAAGAGAGGCGTTGCAGTCTGTCACTACAGAGAGAAAGC
ACAATCTCCCAGCATGAAAAGCAGGGGCCACCTTGAGCCCCTTTGAGAGA
ATAAAAGAAAGTACTAGCATACCAAGGAAACTGATGTCAAGAGGGAACAG
TGTTGATCCCTGCTGGACTACCCAGCCTTCATCATTCCAAATGAGGGCTG
ACCCTAAATAACAGCCAGAAGTCATGCTTTTGTTTATTATTAAAAGTCTA
TAAAAATTGTGTGGATGGCCTTAACTCATTTGATTGTGCTTAATGAGCAA
GTGTCAGAGACTATAGGACAATTCT

AGTGCGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXTCACCTGAGGAATACCGAATGGCTGAGAAGCAC
CTGAAAAAATGTTCAACATCCTTAATCATCAGGGAAATGCAAATCAAAAC
AACCCTGAGATTCCACCTCACACCAGTCAGAATGGCTAAGATCAAAAATT
CAGGTAACAGCAGATGCTGGCGAGGATGTGGAGAAAGAGGAACACTCCTC
CATTGTTGGTGGGGTTGCAAGCTGGTACAACCACTCTGGAAATCAGTCTG
GCTGTTCCTCAGTAAATTGGACATAGTACTACCAGAGGATCCAGCAATAC
CTCTCCTGGGCATATATCCAGAATATGTTCCAACTGGTAATAAGGACACA
TGCTCCCCTATGTTCATAGCAGCCTTATTTATAATAGCCAGAAGCTGGAA
AGAACCCAGATGTCCCTCACTATCTCTTAGCCTTGATCTCCATCAGATCC
TTTCCTAAGTAATGCAGCTGGGGTCTGGGGATCTAAGAGTGGAGTTAATT
CATTCCAAAGTGTAAGAATTCGAGACAAGTTCCACTAGCCAGAAGGCAGT
CAATTAATTTTCTCACTGAAACTGTTCTTAAATTATGAGTCTCCTCACTG
ACACAATCACACCCTCCTAATAGAAACATGAGATTAACTGTTTTAGACCT
AATATCCTAACTGGAAGTAAAGATATATTCTAGGTTAAGGCTTGAGGGCT
TAAAACTGGAGAGAAGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no481_n09.b1 MSMg01no481_n09.b1 CHROMAT_FILE:
MSMg01no481_n09.b1 PHD_FILE: MSMg01no481_n09.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:02:36 2005
         (249 letters)



>mm_chr3_52947262_52947910
          Length = 649

 Score =  482 bits (249), Expect = e-140
 Identities = 249/249 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   cactctacctggtggagcgctcaataaacactattgacagcctccatttgggtagggaat 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 449 cactctacctggtggagcgctcaataaacactattgacagcctccatttgggtagggaat 390

                                                                       
Query: 61  ttccacctgctggagtgctttttgttcccacagcacagctacctgaggcaaaaacagttg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 389 ttccacctgctggagtgctttttgttcccacagcacagctacctgaggcaaaaacagttg 330

                                                                       
Query: 121 ctctaaagagagggtagagcttttgctgtcaacagtatagatcagatcagctaaatgcat 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 329 ctctaaagagagggtagagcttttgctgtcaacagtatagatcagatcagctaaatgcat 270

                                                                       
Query: 181 ttcaatcctgttctattgtgtttaaatgggagggagatatacaagcccatctcaggtagt 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 269 ttcaatcctgttctattgtgtttaaatgggagggagatatacaagcccatctcaggtagt 210

                    
Query: 241 gtcaacaga 249
           |||||||||
Sbjct: 209 gtcaacaga 201


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: 14
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: 249
Length of database: 649
Length adjustment: 9
Effective length of query: 240
Effective length of database: 640
Effective search space:   153600
Effective search space used:   153600
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)

Query= MSMg01no481_n09.g1 MSMg01no481_n09.g1 CHROMAT_FILE:
MSMg01no481_n09.g1 PHD_FILE: MSMg01no481_n09.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:02:36 2005
         (655 letters)



>mm_chr3_52724918_52725972
          Length = 1055

 Score = 1120 bits (579), Expect = 0.0
 Identities = 636/655 (97%)
 Strand = Plus / Plus

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

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

                                                                       
Query: 121 aagatcaaaaattcaggtaacagcagatgctggcgaggatgtggagaaagaggaacactc 180
           |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 aagatcaaaaattcaggtgacagcagatgctggcgaggatgtggagaaagaggaacactc 380

                                                                       
Query: 181 ctccattgttggtggggttgcaagctggtacaaccactctggaaatcagtctggctgttc 240
           ||||||||||||||||  |||||||| |||||||||||||||||||||||||||| ||| 
Sbjct: 381 ctccattgttggtgggactgcaagcttgtacaaccactctggaaatcagtctggcggttt 440

                                                                       
Query: 241 ctcagtaaattggacatagtactaccagaggatccagcaatacctctcctgggcatatat 300
           ||||| |||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct: 441 ctcagaaaattggacatagtactaccggaggatccagcaatacctctcctgggcatatat 500

                                                                       
Query: 301 ccagaatatgttccaactggtaataaggacacatgctcccctatgttcatagcagcctta 360
           |||||| |||| ||||| ||||| |||||||||||||||  |||||||||||||||||||
Sbjct: 501 ccagaagatgtcccaaccggtaagaaggacacatgctccagtatgttcatagcagcctta 560

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

                                                                       
Query: 421 ctccatcagatcctttcctaagtaatgcagctggggtctggggatctaagagtggagtta 480
           ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 621 ctccatcagatcctttcctaagtaatgcagctggggtctggggctctaagagtggagtta 680

                                                                       
Query: 481 attcattccaaagtgtaagaattcgagacaagttccactagccagaaggcagtcaattaa 540
           | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 actcattccaaagtgtaagaattcgagacaagttccactagccagaaggcagtcaattaa 740

                                                                       
Query: 541 ttttctcactgaaactgttcttaaattatgagtctcctcactgacacaatcacaccctcc 600
            |||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 741 ctttctcactgaaactgttcttaaattatgagtctcctcgctgacacaatcacaccctcc 800

                                                                  
Query: 601 taatagaaacatgagattaactgttttagacctaatatcctaactggaagtaaag 655
           |||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct: 801 taatagaaacatgagattaagtgttttagacctaatatcctaactggaagtaaag 855


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: 26
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: 655
Length of database: 1055
Length adjustment: 10
Effective length of query: 645
Effective length of database: 1045
Effective search space:   674025
Effective search space used:   674025
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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