BAC Information

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BAC

Clone NameMSMg01-275J06
Chromosome2 (Build37)
Map Location 147,609,578 - 147,772,457
singlet/doubletdoublet
Overlap genenone
Upstream geneGm114, Xrn2, Nkx2-4, Nkx2-2, LOC100043816, LOC668919, LOC668920, Pax1, LOC640914, A530006G24Rik
Downstream geneLOC100043820, Foxa2, LOC383752, Sstr4, Thbd, Cd93, Nxt1, Gzf1, Napb, Cstl1, Cst11, 8030411F24Rik, Cst12, Cst8, Cst13, Cst9, 9230104L09Rik, Cst3, OTTMUSG00000015744
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-275J06.T7 (MSMg01no275_j06.b1)MSMg01-275J06.TJ (MSMg01no275_j06.g1)
ACCAG413989AG413990
length763777
length of high quality
(start - end)
313 (40 - 352)275 (72 - 346)
definitionCHROMAT_FILE: MSMg01no275_j06.b1 PHD_FILE: MSMg01no275_j06.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:15:20 2005CHROMAT_FILE: MSMg01no275_j06.g1 PHD_FILE: MSMg01no275_j06.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:15:20 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(147,609,578 - 147,609,885)(147,772,186 - 147,772,457)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCC
TGATTTATAAACGATTCCTGTCACCATCCTCTTACCAGTGATGCCTACTG
TCACCACCTAAGAGTTCCCCTTCTGTCCCTGGCCTGCTGCAGTTCTGTTT
GATTCATAGACTCACAGATTCCCTCTGTGTTTTTCCCAGTAAAAGCACTC
TCACCCATAGATCCTACTCAATTTGGAATTTTCCATGTTCAGAGGACACT
GTCACTGCTGCCCACAGAAGTACCTGGCAAAGCAGTAAAGTTACAGGGAG
AGGGTGGAGCTTTCTATATTTACCACTTGGTACACAACAAAATCTGTCAC
CTTTAATTGNTTATCCCTAGCATNCCCTAAAGTGTAGCTTCTTGACTGTT
TTTAAATATTAAATGTTTAGAAAAAAAAAATGAAATTACGTGTTAATGTG
AGAAAATAAATTTAAATAGATAAATATATTTTATATAGTGAGCTATAACA
CAGGAGATACCCTGAGCCTAACCCAAGTGCACTGGCTAGTTTTGTGTCAA
CTTAACACACCTGGGGTTATCACAGAGAATAGAACTTCAGTTGGGGAAGT
GGCTCCATGATATCCAGCTGTGGGGTATTTTCTCAATTAGTGATCAAGGC
GTAAAGGCCCCTTGTGGGTGGGACCATCCCTGGGCTGTAACTCTTGTGTT
CTATAAAACAGCAGGCTGATCTATCCAGGGGAAGCTAGCCTGTAAAGACA
TCTCCTCCATGTC
ACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXTCTTTCATCTGCCTATATTCATCTGTTGG
GTTTGGTTGAAGACAATGAAGGGAATCTCTATGATTGTAGGAAAAGGTTC
TGAAATGGCACATTCAGCTTATTGTGAATATTCCCTTTTTTTGCCACCTA
AATCTAAGTCTTAGTGTAGTTGCCTTGTGACACACAAAAGACCTGGCATC
CTCTTAGGCTTATAAGACTTGCTCCATGCGAACAAAGTATGTGTTCAGAA
ATACCACACTGAAACTCATTCATATATGTAGTTAAGCATGCAGNAAANAT
GTCTGTAAATTTGTTTCCCCCNATCTTTCCCCAATTAAAAAATAAGACAT
TGATTTATTAAATGAAGAGGTCAAAAAAATAATAATTATTTTGAAAGCAA
AGGTAAGCCATCTTTCCTGTATTAGAATGCCTGTAATGGCTGCATGTGAT
AGATAGATAGATTGATAGATAGGCGCATGCCTGTAATGCCAGTGTTCAGG
AGGTTCAAAAAGGAGTACCTGAGTGTAATACTAGGTTGTACATTAAGTTT
GAGGCCGTGATGGGCTGCATAGGGGAACACTACCTCAAAGAAGACCAAAA
TCCAAACATACCCCGTATGTCTTTAACGGTTCTCAGTGAGCACAGTCCAT
CCTTTCCTTTAAATCTTACCCCCATATTTTCAGAATCCCTCCTAAGACTT
ATACCTTCCCCTCCTTCTACGAATTCA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no275_j06.b1 MSMg01no275_j06.b1 CHROMAT_FILE:
MSMg01no275_j06.b1 PHD_FILE: MSMg01no275_j06.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:15:20 2005
         (313 letters)



>mm_chr2_147609374_147610086
          Length = 713

 Score =  572 bits (296), Expect = e-168
 Identities = 305/308 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcctgatttataaacgattcctgtcaccatcctcttaccagtgatgcctactgtca 64
           |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattcctgatttagaaacgattcctgtcaccatcctcttaccagtgatgcctactgtca 264

                                                                       
Query: 65  ccacctaagagttccccttctgtccctggcctgctgcagttctgtttgattcatagactc 124
           ||||||||||||||  ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 ccacctaagagttcagcttctgtccctggcctgctgcagttctgtttgattcatagactc 324

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

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

                                                                       
Query: 245 agtaaagttacagggagagggtggagctttctatatttaccacttggtacacaacaaaat 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 445 agtaaagttacagggagagggtggagctttctatatttaccacttggtacacaacaaaat 504

                   
Query: 305 ctgtcacc 312
           ||||||||
Sbjct: 505 ctgtcacc 512


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: 16
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: 313
Length of database: 713
Length adjustment: 9
Effective length of query: 304
Effective length of database: 704
Effective search space:   214016
Effective search space used:   214016
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= MSMg01no275_j06.g1 MSMg01no275_j06.g1 CHROMAT_FILE:
MSMg01no275_j06.g1 PHD_FILE: MSMg01no275_j06.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:15:20 2005
         (275 letters)



>mm_chr2_147771986_147772660
          Length = 675

 Score =  503 bits (260), Expect = e-147
 Identities = 269/272 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   tctttcatctgcctatattcatctgttgggtttggttgaagacaatgaagggaatctcta 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 472 tctttcatctgcctatattcatctgttgggtttggttgaagacaatgaagggaatctcta 413

                                                                       
Query: 61  tgattgtaggaaaaggttctgaaatggcacattcagcttattgtgaatattccctttttt 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 412 tgattgtaggaaaaggttctgaaatggcacattcagcttattgtgaatattccttttttt 353

                                                                       
Query: 121 tgccacctaaatctaagtcttagtgtagttgccttgtgacacacaaaagacctggcatcc 180
           || |||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 352 tggcacctaaatctaagtcttagtgtagttgccttgtgacacacaaaagacctagcatcc 293

                                                                       
Query: 181 tcttaggcttataagacttgctccatgcgaacaaagtatgtgttcagaaataccacactg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 292 tcttaggcttataagacttgctccatgcgaacaaagtatgtgttcagaaataccacactg 233

                                           
Query: 241 aaactcattcatatatgtagttaagcatgcag 272
           ||||||||||||||||||||||||||||||||
Sbjct: 232 aaactcattcatatatgtagttaagcatgcag 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: 275
Length of database: 675
Length adjustment: 9
Effective length of query: 266
Effective length of database: 666
Effective search space:   177156
Effective search space used:   177156
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)