BAC Information

Click to search

BAC

Clone NameMSMg01-309H09
Chromosome10 (Build37)
Map Location 83,854,763 - 84,017,584
singlet/doubletdoublet
Overlap geneNuak1, Ckap4
Upstream geneLOC666748, Aldh1l2, A230046K03Rik, Appl2, 1500009L16Rik, LOC100041225, C230099D08Rik, LOC432482
Downstream geneTcp11l2, Polr3b, Rfx4, EG625690, Ric8b, Fhl4, AI597468, Mterfd3, Cry1, EG666974, Btbd11
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-309H09.T7 (MSMg01no309_h09.b1)MSMg01-309H09.TJ (MSMg01no309_h09.g1)
ACCAG433244AG433245
length768738
length of high quality
(start - end)
263 (37 - 299)289 (75 - 363)
definitionCHROMAT_FILE: MSMg01no309_h09.b1 PHD_FILE: MSMg01no309_h09.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:51:03 2005CHROMAT_FILE: MSMg01no309_h09.g1 PHD_FILE: MSMg01no309_h09.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:51:03 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(84,017,326 - 84,017,584)(83,854,763 - 83,855,048)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCCAGA
GTTGAGAGAATACAGACTTTAATCAAGTTCTTGCACACATGCATTTGCAA
ATGCACGTAGAGCAATGGGAGGGAGGAAGTGGGAGGGCCCAGGGAGGCAC
TCCACCCAGCAGAGCAGCCAAGGGGAACACATTTCCTAGCATCCGTGCCC
CAGAGTTTGCTTTGGTTTGGTTTTCACGAGGCTATCTAAGTTCACTCTGA
AGCTGTCTAAATTTCTCTTCAGTTCCCCAATGTCTCTGACCATATCTATG
CATTTAGACTGTCTTCTAAGTGAGCGTGGCGGATGTTTCCATAGAGACTG
AAGTAGGTTTCCGCTGNTCAAANCCCCATAGTTTCCCCTAGGGCTTATGA
CCTCCACCCCCCCAAAAATAAAAAAAATAGTTTGGGGGGGGGGGGTGAAT
TCCCTCCTGTGCTGCCGGCCCCTTATATCTACTCCCAAGTATTTGCCTGC
CCCCCCTTGCCTTTTGTTTCCATCGCCCCGCCATTTTTTTTTCCCCCTAC
CCCGCCTATTCCCTTATATTTTTTATTGTTTCATTTTCCCGCTTCTCCGC
ATCCGGCACCTTTTCGATTTACCTTTCCACCAGTACCCGTCTTTATTTCC
CTCCGTTTTCTACCCTCTCTCTCGTTGTACTTCGTTTCCTTCACTACTGG
TTTTCTGGTTATCTTCCCGTCTTTTGTTGGCGTCATTCTCCCCCTCGCCC
CTCGTCCTGTGTATATAN
CGATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXCAGATTGTGAGCTTCCTGAGGACAGG
GACTGTGTGTCAGTCATTGTCCCAGCAGGGAGAAGAGAGTCTGGCAGGTT
GTAGGGGACTCAGTAATGCCTGCTAAATTAAACTGTTTGGATAAGCCTAT
TGATGAGAGTCTTTCCCAGAGCCCACCAACCAGCAGAGGGAGCGGCTGTG
TCAGATCCGGGCTATGAGGAGCCACGCCCACCCGCCATACCCACGCCCCG
GCTGAGTTTTACCTTAATGTTGTAGTTGTCATCAAGCAGTATGTTCTCCA
GCTTCAAGTCTTCGGTGATCTCCCNATTCTGNCCCGAGGAAACGGAAGAA
CTGAGCAGGAGCAGGACCCGCAGCAAGAAAGAGAGAGATGACAGACGAGA
GAGCTCTGGGGAGGGGGCAGCGGAGGCCGGGCACAGGGAACAAGTCTGAC
AGATGAAAGCAATGCACCAGCCAGTCCCGGTGGTCTTCACCTCCATCCTT
CAGGCCTGCTCTCGCTGTCAGGACGCTCCCCAGACAGCAACCAGCGACAG
GAGAGCATTAGTCACTTTCTGTGTGGTTAACAGAAAAATGACTGGAATCC
ATTCTCCCCCCCAGAGCCTGTAAACCAGCAGGGGGATTCTTTGTGGGAAT
GTAATTCCCCTGTGTCTGATACAGGTTCCCAGGGACAC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no309_h09.b1 MSMg01no309_h09.b1 CHROMAT_FILE:
MSMg01no309_h09.b1 PHD_FILE: MSMg01no309_h09.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:51:03 2005
         (263 letters)



>mm_chr10_84017122_84017784
          Length = 663

 Score =  493 bits (255), Expect = e-144
 Identities = 258/259 (99%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattccagagttgagagaatacagactttaatcaagttcttgcacacatgcatttgcaa 64
           |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 463 gaattccagacttgagagaatacagactttaatcaagttcttgcacacatgcatttgcaa 404

                                                                       
Query: 65  atgcacgtagagcaatgggagggaggaagtgggagggcccagggaggcactccacccagc 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 403 atgcacgtagagcaatgggagggaggaagtgggagggcccagggaggcactccacccagc 344

                                                                       
Query: 125 agagcagccaaggggaacacatttcctagcatccgtgccccagagtttgctttggtttgg 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 343 agagcagccaaggggaacacatttcctagcatccgtgccccagagtttgctttggtttgg 284

                                                                       
Query: 185 ttttcacgaggctatctaagttcactctgaagctgtctaaatttctcttcagttccccaa 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 283 ttttcacgaggctatctaagttcactctgaagctgtctaaatttctcttcagttccccaa 224

                              
Query: 245 tgtctctgaccatatctat 263
           |||||||||||||||||||
Sbjct: 223 tgtctctgaccatatctat 205


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: 263
Length of database: 663
Length adjustment: 9
Effective length of query: 254
Effective length of database: 654
Effective search space:   166116
Effective search space used:   166116
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= MSMg01no309_h09.g1 MSMg01no309_h09.g1 CHROMAT_FILE:
MSMg01no309_h09.g1 PHD_FILE: MSMg01no309_h09.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:51:03 2005
         (289 letters)



>mm_chr10_83854563_83855251
          Length = 689

 Score =  538 bits (278), Expect = e-157
 Identities = 284/286 (99%)
 Strand = Plus / Plus

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

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

                                                                       
Query: 121 gcctattgatgagagtctttcccagagcccaccaaccagcagagggagcggctgtgtcag 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 gcctattgatgagagtctttcccagagcccaccaaccagcagagggagcggctgtgtcag 380

                                                                       
Query: 181 atccgggctatgaggagccacgcccacccgccatacccacgccccggctgagttttacct 240
           |||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 381 atccgggctatgaggagccacgcccacccgccatacccacaccccggctgagttttacct 440

                                                         
Query: 241 taatgttgtagttgtcatcaagcagtatgttctccagcttcaagtc 286
           |||||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 441 taatgttgcagttgtcatcaagcagtatgttctccagcttcaagtc 486


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: 289
Length of database: 689
Length adjustment: 9
Effective length of query: 280
Effective length of database: 680
Effective search space:   190400
Effective search space used:   190400
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)