BAC Information

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BAC

Clone NameMSMg01-379N20
Chromosome6 (Build37)
Map Location 51,682,135 - 51,861,628
singlet/doubletdoublet
Overlap geneSkap2
Upstream geneLOC100040877, EG625167, Nfe2l3, Hnrpa2b1, Cbx3, Snx10, LOC100041820
Downstream geneLOC666391, Hoxa1, Hoxa2, Hoxa3, Hoxa4, Hoxa5, Hoxa6, Hoxa7, Hoxa9, Hoxa10, Hoxa11, Hoxa13, Evx1, EG666487, 1700094M24Rik, EG545841, Hibadh, Tax1bp1, Jazf1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-379N20.T7 (MSMg01no379_n20.b1)MSMg01-379N20.TJ (MSMg01no379_n20.g1)
ACCAG484375AG484376
length782771
length of high quality
(start - end)		442 (58 - 499)446 (70 - 515)
definitionCHROMAT_FILE: MSMg01no379_n20.b1 PHD_FILE: MSMg01no379_n20.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:20:44 2005CHROMAT_FILE: MSMg01no379_n20.g1 PHD_FILE: MSMg01no379_n20.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:20:44 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(51,861,190 - 51,861,628)(51,682,135 - 51,682,580)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCC
ATCATGTCTTCTCTGGTTCTCCTCTTTGTAAACAGAAGATAAATATGTGG
CCTGGCATGTTTTGGGGAGGGGCTGTATAAAGTGGCTTTGCTGGTATGAG
TTGAGGTCACATGATTTTGGTACCTTATTCTTGAGTATGCTAGTATGGGA
AGCACACTTGCTCTGCCCCAGCTCTTCTCTGTGCTACTGACTTTATATCC
CTAGTAGGACTCCCTCCTTATGCATGTCAGCATCTCTCATGTTACAAGGA
TGAGAGTTTTAGAGTCAAATTAGAGTTAAGCTAGAGGTAGAGTCAAGTTT
GTAACTGGAGTGAGTAGAGATTGAACCATCCAGATCTAGCCTTTAAAATC
TTGTTTCTCTGGAGTGAGTTGAAAGAAAATCCTTCAAAATTTCTTTGGAC
CACTTTAGTGTTTTGCCTTCTATTATTTTCTTTCCTTTTTTTTTTTGNAG
TGGAAGTTAAATTCCTCTTACAGTGCAAGTGGACTGTTGACTGGTGTTTG
TATCACACCTACTTTTGTAATGCCCATATTTTTATTTCCCCGAGAAAGAT
CTGAAAATGGGTGCTATTAAATACTTTTGTCTTACCTTCTTTTTATATCA
CCCGGCCATATTGTAAGTTGTTTTTATTACACTTTTCGGATAAAATGGTT
ATTTTTTCTTTATATGGGATAAATATCAAATTCTTTTATTCCCCTATAAA
TTCTTTTTCTCCTTCCGTTTTTTCTTTTCCCN

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXTCACCCAGGATTCCTCGATGCTGGTTCTCCC
AGCTCAAGTTAATTGTCTTTGGTTTCTGGAGACTGGCTAGCAGTAACAGG
CACTATAAAGGGGGCAGACACCAGCCAGTGTTGGGCAAGGCTATGGAAGA
CATGGAGAGGCTCCTTTAAATGAAGTAGAAGGTTTGTGTGTCCTGTGTCC
TTCCCCCTTCCCCTGTAAAGATGGCGCCAGTCTCGCCTTGAAAGGCAGAG
TGAACAGACGATCAATAGCTTCTTACTTCTGGCCAGGGTGTGGTAACGGC
TAGGCCATTAGTACACTGTTGGGCTCTTTCCACGGACATGTGTTTCCCCG
AAGCTGCTACAGCATTTCCGAGGCACTTGGCTTCCTCTCCTACCTAGCTC
GCACAGCCTACGGGAGGAAGGGCTCCAGCCCTCTGTGCTTATGAAGAAGG
TAATGCATGTTAAATTGCCTTGGCTCACCCAGGCGATTGTGCACCTTTAG
AAGGTGCGGGGAAATGTCTCTCTGTGTGCAGATTGGCCAACACACACATC
TGTTCTCTTGGACCAAATCCGCAATCTGCCCTCTCTTTGCTGGAGAATCC
CCACCCGCTGCTGGCTGGAGCCCCAGGCCCTGTCGGAGAATGTGTCTAAC
CCATTAACTGGGGTTTTGTGGCCCCCCCCCCCCAAAGTCAACCTCCCTAG
CCCTGTTTTCCGTTCCCCCCG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no379_n20.b1 MSMg01no379_n20.b1 CHROMAT_FILE:
MSMg01no379_n20.b1 PHD_FILE: MSMg01no379_n20.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:20:44 2005
         (442 letters)



>mm_chr6_51860990_51861831
          Length = 842

 Score =  841 bits (435), Expect = 0.0
 Identities = 438/439 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   cttctctggttctcctctttgtaaacagaagataaatatgtggcctggcatgttttgggg 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 639 cttctctggttctcctctttgtaaacagaagataaatatgtggcctggcatgttttgggg 580

                                                                       
Query: 61  aggggctgtataaagtggctttgctggtatgagttgaggtcacatgattttggtacctta 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 579 aggggctgtataaagtggctttgctggtatgagttgaggtcacatgattttggtacctta 520

                                                                       
Query: 121 ttcttgagtatgctagtatgggaagcacacttgctctgccccagctcttctctgtgctac 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 519 ttcttgagtatgctagtatgggaagcacacttgctctgccccagctcttctctgtgctac 460

                                                                       
Query: 181 tgactttatatccctagtaggactccctccttatgcatgtcagcatctctcatgttacaa 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 459 tgactttatatccctagtaggactccctccttatgcatgtcagcatctctcatgttacaa 400

                                                                       
Query: 241 ggatgagagttttagagtcaaattagagttaagctagaggtagagtcaagtttgtaactg 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 399 ggatgagagttttagagtcaaattagagttaagctagaggtagagtcaagtttgtaactg 340

                                                                       
Query: 301 gagtgagtagagattgaaccatccagatctagcctttaaaatcttgtttctctggagtga 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 339 gagtgagtagagattgaaccatccagatctagcctttaaaatcttgtttctctggagtga 280

                                                                       
Query: 361 gttgaaagaaaatccttcaaaatttctttggaccactttagtgttttgccttctattatt 420
           ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct: 279 gttgaaagaaaatccttcaaattttctttggaccactttagtgttttgccttctattatt 220

                              
Query: 421 ttctttccttttttttttt 439
           |||||||||||||||||||
Sbjct: 219 ttctttccttttttttttt 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: 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: 442
Length of database: 842
Length adjustment: 9
Effective length of query: 433
Effective length of database: 833
Effective search space:   360689
Effective search space used:   360689
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= MSMg01no379_n20.g1 MSMg01no379_n20.g1 CHROMAT_FILE:
MSMg01no379_n20.g1 PHD_FILE: MSMg01no379_n20.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:20:44 2005
         (446 letters)



>mm_chr6_51681935_51682780
          Length = 846

 Score =  832 bits (430), Expect = 0.0
 Identities = 442/446 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   tcacccaggattcctcgatgctggttctcccagctcaagttaattgtctttggtttctgg 60
           |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 tcacccaggagtcctcgatgctggttctcccagctcaagttaattgtctttggtttctgg 260

                                                                       
Query: 61  agactggctagcagtaacaggcactataaagggggcagacaccagccagtgttgggcaag 120
           ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct: 261 agactggctagcagtaacaggcactgtaaagggggcagacaccagccagtgttgggcaag 320

                                                                       
Query: 121 gctatggaagacatggagaggctcctttaaatgaagtagaaggtttgtgtgtcctgtgtc 180
           |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 gctatggaaggcatggagaggctcctttaaatgaagtagaaggtttgtgtgtcctgtgtc 380

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

                                                                       
Query: 241 gatcaatagcttcttacttctggccagggtgtggtaacggctaggccattagtacactgt 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 gatcaatagcttcttacttctggccagggtgtggtaacggctaggccattagtacactgt 500

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

                                                                       
Query: 361 gcttcctctcctacctagctcgcacagcctacgggaggaagggctccagccctctgtgct 420
           |||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||
Sbjct: 561 gcttcctctcctacctagcttgcacagcctacgggaggaagggctccagccctctgtgct 620

                                     
Query: 421 tatgaagaaggtaatgcatgttaaat 446
           ||||||||||||||||||||||||||
Sbjct: 621 tatgaagaaggtaatgcatgttaaat 646


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: 21
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: 446
Length of database: 846
Length adjustment: 10
Effective length of query: 436
Effective length of database: 836
Effective search space:   364496
Effective search space used:   364496
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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