BAC Information

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BAC

Clone NameMSMg01-098K20
Chromosome1 (Build37)
Map Location 169,524,099 - 169,682,625
singlet/doubletdoublet
Overlap geneRxrg, Lmx1a
Upstream geneEG226604, 4831428F09Rik, LOC240895, LOC622102, C030014K22Rik, Uck2, LOC100039844, Tmco1, Aldh9a1, Mgst3, Lrrc52
Downstream geneLOC100039879, Pbx1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-098K20.T7 (MSMg01no098_k20.b1)MSMg01-098K20.TJ (MSMg01no098_k20.g1)
ACCAG314797AG314798
length674771
length of high quality
(start - end)
476 (29 - 504)322 (137 - 458)
definitionCHROMAT_FILE: MSMg01no098_k20.b1 PHD_FILE: MSMg01no098_k20.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:55:52 2005CHROMAT_FILE: MSMg01no098_k20.g1 PHD_FILE: MSMg01no098_k20.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:55:52 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(169,682,193 - 169,682,625)(169,524,099 - 169,524,418)
sequence
GAGTCCGCGGAATTCAAGGATACCCTGAGATATGTAGTAAGATTGAGGTC
AGTCTGAACTACATAAAAGAAGACCTTGCCACCAAAAGAAGACAGCTCCA
TGAGCTTTGGAAATACATTACAGCATCAAGTGTGGTCCCCTGAACCATCC
ACATGGCCTAGGAAAAAGTCAGAAATGGCATTCTTACCCACTGCATCTCA
CATCCCAAACATCTATGTCTTAATGAGCCTTCCAGACCATTTTAATGCAT
GCTAAAGCTTAAGTACTACTGGAATAGAGACTACAGGGCTCCTTTGTTCT
AATGATCTGCCCCTAGTATATCTGCTAAGTTAATGTCCAGCTTTTGCTTA
AAAACCATTATATACCCTCCTACCCCCTGTTCATCAAACAGCAAGCAAAG
GCTTAATGTTACCAACATAAGACCCAAGAAATAATATAACCAGTTATCCC
ACAAACAGACGGCATCACCAGTCACCCTCCTCAGCACTGGTACCCATCTG
ATAGCTGAGCATGAGCAATTGAGATGCTAATGACAAGGCCCTGCTTGCAA
TCTGTGCTTCTATAGGGTATCCTAGAAGGCATGATAACAGGTCTGGCCCA
TCCAACGTCCATCATAACCTACCGCCTCCCAATGAATAACCACGCATGAA
GTACCTTTGAAGCCTTGTGGCATA
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCCCCCNNNTT
CTTTTTCTTTTCNCTCGATGATGTGGGTGGCCTGGCGGCCGCCTTTCAAA
CAAGTTTAGGTGACCTATAGATTTCCCGAGAAATTCCAGAGAGTTGGAGA
TACCATAGTGACTGACATGCGTGTAGCTGTCTGGGAAGGACGTATGTTAG
ACATACTAGAGAGTCAGGATACTGTTGTTATACCACTAATGGTTTTGGGC
AAGGCACACCAGTGCTGAGCCAAAAGAGGCAGACTGAAGAGAAAAGAATT
TCCACATTTCTTTTAACTTTGCATAAAGTTTACGTTGTAATATGATGGTA
AGCCTCATAGAAGGTATCACAGGGGAAGTGCTCTTAAGTGTTATTGGCAC
ATTGGGGAATATTGAAAGCTCAGAAACCTTTTTTGTTGTTGTTTATGAGA
GCTCTATCTTCATATAAACCTTCTTGCCTGGGGTATCAAATCTCATTACA
GACGGTTGTGATCCACCAGGTGCTTGCTGGGAATTGAACTCATGACCTCT
GGAAGAGTATCCAGTGCTCTTCTTAACTTTCGAGCCTTCTCTCCAGTCAT
ATGACATCCATTTTTTCTCAAGTTCATCTCATTTACGAAATATTTTCTTG
CATTATTGTTGGAAGAGTTTCCTATCTCTCCCCTCTTTGTTCTTTTTTTA
CCTACACCCTTCTTCCGTGTACACTCGTTTTTTGTTTTTTTGTCCTTTTG
CCACCATTTAACGCTTATTCT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no098_k20.b1 MSMg01no098_k20.b1 CHROMAT_FILE:
MSMg01no098_k20.b1 PHD_FILE: MSMg01no098_k20.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:55:52 2005
         (476 letters)



>mm_chr1_169681750_169682625
          Length = 876

 Score =  799 bits (413), Expect = 0.0
 Identities = 428/433 (98%)
 Strand = Plus / Minus

                                                                       
Query: 44  gaccttgccaccaaaagaagacagctccatgagctttggaaatacattacagcatcaagt 103
           ||||||||||  ||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 876 gaccttgccaaaaaaagaagacagctccatgagctttggaaatacattagagcatcaagt 817

                                                                       
Query: 104 gtggtcccctgaaccatccacatggcctaggaaaaagtcagaaatggcattcttacccac 163
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 816 gtggtcccctgaaccattcacatggcctaggaaaaagtcagaaatggcattcttacccac 757

                                                                       
Query: 164 tgcatctcacatcccaaacatctatgtcttaatgagccttccagaccattttaatgcatg 223
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 756 tgcatctcacatcccaaacatctatgtcttaatgagccttccagaccattttaatgcatg 697

                                                                       
Query: 224 ctaaagcttaagtactactggaatagagactacagggctcctttgttctaatgatctgcc 283
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 696 ctaaagcttaagtactactggaatagagactacagggctcctttgttctaatgatctgcc 637

                                                                       
Query: 284 cctagtatatctgctaagttaatgtccagcttttgcttaaaaaccattatataccctcct 343
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 636 cctagtatatctgctaagttaatgtccagcttttgcttaaaaaccattatataccctcct 577

                                                                       
Query: 344 accccctgttcatcaaacagcaagcaaaggcttaatgttaccaacataagacccaagaaa 403
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 576 accccctgttcatcaaacagcaagcaaaggcttaatgttaccaacataagacccaagaaa 517

                                                                       
Query: 404 taatataaccagttatcccacaaacagacggcatcaccagtcaccctcctcagcactggt 463
           |||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 516 taatataaccagttatcccacaaacagacggcatcaccagccaccctcctcagcactggt 457

                        
Query: 464 acccatctgatag 476
           |||||||||||||
Sbjct: 456 acccatctgatag 444


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: 18
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: 476
Length of database: 876
Length adjustment: 10
Effective length of query: 466
Effective length of database: 866
Effective search space:   403556
Effective search space used:   403556
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= MSMg01no098_k20.g1 MSMg01no098_k20.g1 CHROMAT_FILE:
MSMg01no098_k20.g1 PHD_FILE: MSMg01no098_k20.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:55:52 2005
         (322 letters)



>mm_chr1_169523897_169524618
          Length = 722

 Score =  565 bits (292), Expect = e-165
 Identities = 313/320 (97%)
 Strand = Plus / Plus

                                                                       
Query: 3   gagagttggagataccatagtgactgacatgcgtgtagctgtctgggaaggacgtatgtt 62
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 203 gagagttggagatgccatagtgactgacatgcgtgtagctgtctgggaaggacgtatgtt 262

                                                                       
Query: 63  agacatactagagagtcaggatactgttgttataccactaatggttttgggcaaggcaca 122
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 263 agacatactagagagtcaggatactgttgttataccactaatggttttgggcaaggcaca 322

                                                                       
Query: 123 ccagtgctgagccaaaagaggcagactgaagagaaaagaatttccacatttcttttaact 182
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 323 ccagtgctgagccaaaaaaggcagactgaagagaaaagaatttccacatttcttttaact 382

                                                                       
Query: 183 ttgcataaagtttacgttgtaatatgatggtaagcctcatagaaggtatcacaggggaag 242
           |||||||||||||| |||| |||||||||||||||||||||||||| |||||||||||||
Sbjct: 383 ttgcataaagtttaggttgcaatatgatggtaagcctcatagaaggcatcacaggggaag 442

                                                                       
Query: 243 tgctcttaagtgttattggcacattggggaatattgaaagctcagaaaccttttttgttg 302
           ||||||||||||||||||| ||||||||||||||||||||| ||||||||||||||||||
Sbjct: 443 tgctcttaagtgttattggtacattggggaatattgaaagcacagaaaccttttttgttg 502

                               
Query: 303 ttgtttatgagagctctatc 322
           ||||||||||||||||||||
Sbjct: 503 ttgtttatgagagctctatc 522


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: 322
Length of database: 722
Length adjustment: 9
Effective length of query: 313
Effective length of database: 713
Effective search space:   223169
Effective search space used:   223169
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)