BAC Information

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BAC

Clone NameMSMg01-272I12
Chromosome2 (Build37)
Map Location 38,601,415 - 38,779,193
singlet/doubletdoublet
Overlap geneNr6a1
Upstream geneDennd1a, LOC100040947, Lhx2, Nek6, Psmb7, LOC674251, Nr5a1
Downstream geneOlfml2a, LOC624652, LOC100041071, 1700123D08Rik, Rpl35, Arpc5l, Golga1, A930041I02Rik, LOC100042584, Ppp6c, Vmn2r-ps2, Ppia-ps2_560.1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-272I12.T7 (MSMg01no272_i12.b1)MSMg01-272I12.TJ (MSMg01no272_i12.g1)
ACCAG411787AG411788
length735728
length of high quality
(start - end)
318 (46 - 363)247 (73 - 319)
definitionCHROMAT_FILE: MSMg01no272_i12.b1 PHD_FILE: MSMg01no272_i12.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:11:42 2005CHROMAT_FILE: MSMg01no272_i12.g1 PHD_FILE: MSMg01no272_i12.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:11:43 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(38,601,415 - 38,601,728)(38,778,947 - 38,779,193)
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCAACAATGCTGCAAAATACAATTAACATACACCAATTCTTTTGTCA
TATGCTATCAAATAAACATCCTAAAGAAAATGTTAAGAAAATAATTCCAC
ATAAAATAGCATACAAATGTAACAAAGTTATAAAAGGATAAAAGACCTAT
ACAGTGAAACGCATAAAGTGTCAGTCACAAATTACACACAAACATATTTG
TGGACTAGACAACTTAATTCTAAAATTTAAAAAGCATCCTAAAATCCATA
TGCAACCAAAAAGACTCCAAGCTGCCATGATACTCATAAGAAAGAATAAT
GCAGCTACATACTTTTGTTTTTACCCCCCACTCCCCAGCTACAGTAATGA
AAACACGGTGGTACTGATTTACACTTTAATAAACTACACTCAGAAGTATA
TGGTCAAATGATATTCAACAAAGGCACAGGACTACACAGTAGGGAAAGAA
TAATCTCTTCAACTAACGGTGCTAGGCAAACATGTATACACGCAGGAGTA
AAGAAGGAAAAAGAGAGACCTCTTGTCTCATACTACACACAAAAATCAAC
TCACAGTTTATTAAATGTAAGATCTAACACTGTAAAATTCCAGGAGGAAA
ACCCAATAATAACCTTTTAAGGTGTCTCTTGCCATCCATTTCATATATAA
GACCATAAAAGTCCATTGTCCTGCCTGATATGTTT
CGATGATAGTGGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXCTTGTGCTGACTCTGCTATTTTCGGCTG
TTGGTTGTGGTTTTCATAACAAACAAACTCATTTAGTTGCAATAGTGATT
GCTCCCTTTTGGGATTTCAAAGGAAGATGAATGATTTGAGGGAGCATTTG
TTCATTTTATTTCCAGAGGGTGGGAGAATAGATTTTTAAATATTTAAAGC
AAAATAAGGCTATAAGCCATTATAAAGAATTAAAGGCATATTTCACTTTA
TTGTACTTTGCAGGAAATGTTTTCTTTATATACTGTGTGCTTCTCTCCAC
ACGAGTTTTTCAATAATTGCTNACCCCNTCCCTAACAAGTACCTTACGTC
ACAAATTTAACTTCTTACTTCAAAAAAAAAAAAACTTAGTTCTGAATCAA
CTGAGAGAATTTTCCGGCCTCCTTGACAAATCTGAGGTGTTAGTTAAATG
GCCAAATTCTCTCTCTTGGATGTACCATTCACCAATTGCTGCGTATGCCT
CCTCCTCTCAGAGTCTGAGAGCACAGTTAGTTACTAATCTGTTTCTGTAT
CTTGTAGCAGATAGCCTCATGTTCGTGCTCGCACCTTTAACGCGCGAGAA
CCGTATTTAATGATATTTATGCTGGCAAAATCCCCTAATCTTGCCGCAAC
ATTATCTCAGTATTTTTTTATTCCCCCN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no272_i12.b1 MSMg01no272_i12.b1 CHROMAT_FILE:
MSMg01no272_i12.b1 PHD_FILE: MSMg01no272_i12.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:11:42 2005
         (318 letters)



>mm_chr2_38601211_38601928
          Length = 718

 Score =  584 bits (302), Expect = e-171
 Identities = 311/314 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcaacaatgctgcaaaatacaattaacatacaccaattcttttgtcatatgctatc 64
           |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattcaacaatgctgtaaaatacaattaacatacaccaattcttttgtcatatgctatc 264

                                                                       
Query: 65  aaataaacatcctaaagaaaatgttaagaaaataattccacataaaatagcatacaaatg 124
           |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 aaataaacattctaaagaaaatgttaagaaaataattccacataaaatagcatacaaatg 324

                                                                       
Query: 125 taacaaagttataaaaggataaaagacctatacagtgaaacgcataaagtgtcagtcaca 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 taacaaagttataaaaggataaaagacctatacagtgaaacgcataaagtgtcagtcaca 384

                                                                       
Query: 185 aattacacacaaacatatttgtggactagacaacttaattctaaaatttaaaaagcatcc 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 aattacacacaaacatatttgtggactagacaacttaattctaaaatttaaaaagcatcc 444

                                                                       
Query: 245 taaaatccatatgcaaccaaaaagactccaagctgccatgatactcataagaaagaataa 304
           |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 445 taaaatccatatgcaaccaaaaagactccaagctgccaggatactcataagaaagaataa 504

                         
Query: 305 tgcagctacatact 318
           ||||||||||||||
Sbjct: 505 tgcagctacatact 518


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: 15
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: 318
Length of database: 718
Length adjustment: 9
Effective length of query: 309
Effective length of database: 709
Effective search space:   219081
Effective search space used:   219081
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= MSMg01no272_i12.g1 MSMg01no272_i12.g1 CHROMAT_FILE:
MSMg01no272_i12.g1 PHD_FILE: MSMg01no272_i12.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:11:43 2005
         (247 letters)



>mm_chr2_38778747_38779393
          Length = 647

 Score =  470 bits (243), Expect = e-137
 Identities = 246/247 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   cttgtgctgactctgctattttcggctgttggttgtggttttcataacaaacaaactcat 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 447 cttgtgctgactctgctattttcggctgttggttgtggttttcataacaaacaaactcat 388

                                                                       
Query: 61  ttagttgcaatagtgattgctcccttttgggatttcaaaggaagatgaatgatttgaggg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 387 ttagttgcaatagtgattgctcccttttgggatttcaaaggaagatgaatgatttgaggg 328

                                                                       
Query: 121 agcatttgttcattttatttccagagggtgggagaatagatttttaaatatttaaagcaa 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 327 agcatttgttcattttatttccagagggtgggagaatagatttttaaatatttaaagcaa 268

                                                                       
Query: 181 aataaggctataagccattataaagaattaaaggcatatttcactttattgtactttgca 240
           || |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 267 aagaaggctataagccattataaagaattaaaggcatatttcactttattgtactttgca 208

                  
Query: 241 ggaaatg 247
           |||||||
Sbjct: 207 ggaaatg 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: 12
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: 247
Length of database: 647
Length adjustment: 9
Effective length of query: 238
Effective length of database: 638
Effective search space:   151844
Effective search space used:   151844
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)