BAC Information

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BAC

Clone NameMSMg01-542F06
Chromosome12 (Build37)
Map Location 58,692,348 - 58,732,470
singlet/doubletdoublet
Overlap gene4921506M07Rik
Upstream geneNkx2-9, Pax9, Slc25a21, AU021838, LOC100040044, Foxa1
Downstream geneEG217600, BC042761, Sstr1, Clec14a
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-542F06.T7 (MSMg01no542_f06.b1)MSMg01-542F06.TJ (MSMg01no542_f06.g1)
ACCAG608129AG608130
length780758
length of high quality
(start - end)		646 (44 - 689)590 (78 - 667)
definitionCHROMAT_FILE: MSMg01no542_f06.b1 PHD_FILE: MSMg01no542_f06.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:22:19 2005CHROMAT_FILE: MSMg01no542_f06.g1 PHD_FILE: MSMg01no542_f06.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:22:20 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(58,692,348 - 58,692,989)(58,732,037 - 58,732,470)
sequence
CCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAA
TTCTTTTGTTTCCTCTCTCTCTTTAATAATTTCTGTTTCCTCCTTCCCAT
TATGCTGCAGCTGTGTGCTTTGCAGTCGATTTTTCAGTATGCCTGCAAGT
AGCTCCTCTCCCACAGCGTCTCCTCCTAATATCTTATTTCTGTTCTGCCT
CAGGCTTAGAAGCTGGATAAATAAACCTGGCAATATTATTTGTAAAGTGA
GGGTGACTAGCCTCAGCGGCAGGGCCTTGGAAGCTTTCCTGTGGGAAAGC
GCCAGCTCCCCTCCAACCTCAGGCCTCGGCTGACATCCCTTCAGGACTCT
TTGCTTACGACCTGCTTCCCAAACTTCCTGCCAGACCCCAAGATGGGAAG
ATACCTGCACAGTGAATGCGTAAGGGATAACTACCTTTGCCATTTTCTGT
TCTTCTTGGCTCAGATGCTGTGAAAATATTTTTGTATTTGAATAAGGCAT
ATTTAGGGCATAGAGCTGTAGACCAGTTCTTTTGCAAATCAAAATGAAGA
ATAACCGCCTCAGAACCACAGAAAACCTTTAGGCCATTTGATTATTTTAA
GATGCAAACTCTAATGCTGACCTTGGGGGATTTTTGAACCACAGCTGTCA
GTTTAAACAAAGATCCAAAACTAATTAAGCATTTGTTGGAAGGGGCACAG
GTTTGAGAACTGGTTGGACAACTTTTTAAAGTTAATGACAGTTCTCCAGA
AAACAAATAGAGGTGCTAATATTGTGTCCC

NNCCGATGCTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXACTCCCTAAGCATCTCTTTGGAC
CAGGAGGCTGGCAGCAGTGATAATTGGTTGAAGTCAACCAGTGCCCTGTA
GGGGCAGCATGTCTGCCACCACCTCTTTTTGTATTCATGCAAATCAACAA
AAGAGTTTTACATCAGCAAAGCAATGAAATGGAATAAGCCTTCACAGAAA
GACTCAACCCCGTGGGATCTAAGATATAAAAGTAGTGCCACTTCAGGGTG
TCCTGTAAGGTCCCAAATGTGGATCCCATGGGCTTGGTTCCCCGGACAAA
TAAAATGAAAACAAGAGAAAGAGGGCTAAGCACGAGGATGCACTTCTCTG
CCTCCCAGAGATTAGGAGTCTCAGGTACATGTTCCTTCCTCCATGATGTT
GGCCTTTTGTTTTTCTTCTTGCCAACATAGACTATGTGTCCTCAAACCAT
GATCTCAAACAACTCCTTTCTCCCTTAAGTTTTTGCCAAGTGTTTTGTGG
AAAAAGTAATAAATAGTACAGAGGTAGGGGCAGATGAGATCCGGGCTTCC
TTTCTACCCTGATATTTCTCTGTCCATGGCACCACTATTGTGATCCGCTA
TCAGCCCACCCCCAGAGCTGAGCAGGAGCTGGCAACGCCCCTTTACTCTC
CCCACTGAGCACTGGATAAGCCTTTGTGTGGCATCCACTCTCANGTATTT
TCAAGAGN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no542_f06.b1 MSMg01no542_f06.b1 CHROMAT_FILE:
MSMg01no542_f06.b1 PHD_FILE: MSMg01no542_f06.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:22:19 2005
         (646 letters)



>mm_chr12_58692144_58693189
          Length = 1046

 Score = 1218 bits (630), Expect = 0.0
 Identities = 639/642 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcttttgtttcctctctctctttaataatttctgtttcctccttcccattatgctg 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattcttttgtttcctctctctctttaataatttctgtttcctccttcccattatgctg 264

                                                                       
Query: 65  cagctgtgtgctttgcagtcgatttttcagtatgcctgcaagtagctcctctcccacagc 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 cagctgtgtgctttgcagtcgatttttcagtatgcctgcaagtagctcctctcccacagc 324

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

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

                                                                       
Query: 245 cctgtgggaaagcgccagctcccctccaacctcaggcctcggctgacatcccttcaggac 304
           |||||||||||| ||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 445 cctgtgggaaagtgccagctcccctccaacctcaggcctctgctgacatcccttcaggac 504

                                                                       
Query: 305 tctttgcttacgacctgcttcccaaacttcctgccagaccccaagatgggaagatacctg 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 tctttgcttacgacctgcttcccaaacttcctgccagaccccaagatgggaagatacctg 564

                                                                       
Query: 365 cacagtgaatgcgtaagggataactacctttgccattttctgttcttcttggctcagatg 424
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 565 cacagtgaatgcgtaagggataactacctttgccattttctgttcttcttggctcagatg 624

                                                                       
Query: 425 ctgtgaaaatatttttgtatttgaataaggcatatttagggcatagagctgtagaccagt 484
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 625 ctgtgaaaatatttttgtatttgaataaggcatatttagggcatagagctgtagaccagt 684

                                                                       
Query: 485 tcttttgcaaatcaaaatgaagaataaccgcctcagaaccacagaaaacctttaggccat 544
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 685 tcttttgcaaatcaaaatgaagaataaccgcctcagaaccacagaaaacctttaggccat 744

                                                                       
Query: 545 ttgattattttaagatgcaaactctaatgctgaccttgggggatttttgaaccacagctg 604
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 745 ttgattattttaagatgcaaactctaatgctgaccttgggggatttttgaaccacagctg 804

                                                     
Query: 605 tcagtttaaacaaagatccaaaactaattaagcatttgttgg 646
           ||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 805 tcagtttaaacaaagatccaaaattaattaagcatttgttgg 846


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: 32
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: 646
Length of database: 1046
Length adjustment: 10
Effective length of query: 636
Effective length of database: 1036
Effective search space:   658896
Effective search space used:   658896
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= MSMg01no542_f06.g1 MSMg01no542_f06.g1 CHROMAT_FILE:
MSMg01no542_f06.g1 PHD_FILE: MSMg01no542_f06.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:22:20 2005
         (590 letters)



>mm_chr12_58732037_58733026
          Length = 990

 Score =  816 bits (422), Expect = 0.0
 Identities = 431/434 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   actccctaagcatctctttggaccaggaggctggcagcagtgataattggttgaagtcaa 60
           |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||| 
Sbjct: 434 actccctaagcatctctttggaccaggaggctggcagcagtgataattggttgaggtcag 375

                                                                       
Query: 61  ccagtgccctgtaggggcagcatgtctgccaccacctctttttgtattcatgcaaatcaa 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 374 ccagtgccctgtaggggcagcatgtctgccaccacctctttttgtattcatgcaaatcaa 315

                                                                       
Query: 121 caaaagagttttacatcagcaaagcaatgaaatggaataagccttcacagaaagactcaa 180
           ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 314 caaaatagttttacatcagcaaagcaatgaaatggaataagccttcacagaaagactcaa 255

                                                                       
Query: 181 ccccgtgggatctaagatataaaagtagtgccacttcagggtgtcctgtaaggtcccaaa 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 254 ccccgtgggatctaagatataaaagtagtgccacttcagggtgtcctgtaaggtcccaaa 195

                                                                       
Query: 241 tgtggatcccatgggcttggttccccggacaaataaaatgaaaacaagagaaagagggct 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 194 tgtggatcccatgggcttggttccccggacaaataaaatgaaaacaagagaaagagggct 135

                                                                       
Query: 301 aagcacgaggatgcacttctctgcctcccagagattaggagtctcaggtacatgttcctt 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 134 aagcacgaggatgcacttctctgcctcccagagattaggagtctcaggtacatgttcctt 75

                                                                       
Query: 361 cctccatgatgttggccttttgtttttcttcttgccaacatagactatgtgtcctcaaac 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 74  cctccatgatgttggccttttgtttttcttcttgccaacatagactatgtgtcctcaaac 15

                         
Query: 421 catgatctcaaaca 434
           ||||||||||||||
Sbjct: 14  catgatctcaaaca 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: 22
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: 590
Length of database: 990
Length adjustment: 10
Effective length of query: 580
Effective length of database: 980
Effective search space:   568400
Effective search space used:   568400
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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