BAC Information

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BAC

Clone NameMSMg01-234A11
Chromosome6 (Build37)
Map Location 115,277,576 - 115,387,584
singlet/doubletdoublet
Overlap genePparg
Upstream geneHrh1, Atg7, Vgll4, 1500001M20Rik, LOC100043420, Syn2, Timp4
Downstream geneTsen2, 2510049J12Rik, Mkrn2, Raf1, LOC100043759, D830050J10Rik, Tmem40, EG620848, Cand2, Rpl32, BC060267, Mbd4, Ift122, Rho, H1foo, Plxnd1, Tmcc1, LOC100043425, EG666634, EG666648, D6Wsu116e, Anubl1, March8, Alox5
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-234A11.T7 (MSMg01no234_a11.b1)MSMg01-234A11.TJ (MSMg01no234_a11.g1)
ACCAG400047AG400048
length720719
length of high quality
(start - end)
422 (127 - 548)284 (76 - 359)
definitionCHROMAT_FILE: MSMg01no234_a11.b1 PHD_FILE: MSMg01no234_a11.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:50:52 2005CHROMAT_FILE: MSMg01no234_a11.g1 PHD_FILE: MSMg01no234_a11.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:50:52 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(115,387,163 - 115,387,584)(115,277,576 - 115,277,859)
sequence
TATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCAGCTATAGTTTCCACGAGAAAACAAAGTTCCTTATAGATACAAGTA
AGGATACTAGCTCTGTGTATGTGCCTCTTGGCTGCAAGAGGGCTCACTAG
GCAAAGTTTGGGTTCCCTTGTCAAATATCTGCATAGTAAGTACCCAAACA
ATCTTCAGTTATCTATGTTATGGTGTAAACATTGCACACCAAAAAGAAGA
GTGTGCATTGGTGATAACTTAGAGGACGTCCTGGTCTTAGTGACATCTAG
AAAGAAGTCTGTACTCCTAATTATCAGGAATACCCATCAAACTATATCAT
TTGCCTCAAAATCCCTCCTCATGGACCTAGCCAGAGTCACTGCATTTACT
TTCCCTAATATGTTTAATTTTCATCTCTCTCTGTTCTTACTCTTTGTTAT
CAGTTATTTTCCTCTCACAAGTTTCCTTTCTTGTCTAGATTGTAATATTC
TTAAAGTTTGCTGCTTCTCATGGTATATGTTGCGATTGACTGAGTTAAAG
GTGGTGAGTATGCCTCTGTACAGAAACTGAGAAGTTAAAATAAGGATGCA
AAAATACCTAGGTTTCTGTAAAAATTGGTCATTCATCATTTTATTGGTTA
ACTTCTTTTTCCATTTGGAGGTTGAACCCAGAGCTTTGCACATGCCAGGT
AAATATTCTACACCTAAGGT
CGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXTTTGGGTCACATGAAACTAAACTAA
ATCTTGAATATAATAAAAATTTTCCATGGAGCTGTTACCTTCGCTTTAGT
TGAATTTTGGTTGCATCTGAAGAAATGGAAACACAGGGCCGGTGGTGTAT
AGAGCTCAGTGGTGGTTGTTTGTCCAGCATGCATGTGGCCCCAGGTTCTA
TCCTCAGCACCGCAAAACACCACTAACAATAACCGAAATACAAAATGAAC
ATATCTTGTTGGCAGTAATTATATTAAGCAGAATCGGGAGTTTAAAAAGG
TTTATCCAAACTATTTTTACATGCGCCCCCCGCCAAACAAAATAACCCTA
AGGAACTATGATTCAAGAGGGGACAGGACTGTAAGATCAAGAGGTTAAGG
AAGACCTGAGCAAAACTATCTCCTAAACACAACAGGACTGATGCAGTCCT
CAGCTCACAGCTGCTGCATCTGCTGTACAAGACCGGTATAAGATCTAGCC
AGCCAACATTCCATTATGGACGGAGGAGGGGCTCATGGGCTCCCACCCCT
AACTGAGGAACAGATGCATACAGCCATTGAATTGTGTAGGAGGCAAGAGT
CAGTACACCAACCAGGTTCCAGTGTGCGTCACCATGGTCAGGAAAACTTG
AGATGAGGATGGATCTCAG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no234_a11.b1 MSMg01no234_a11.b1 CHROMAT_FILE:
MSMg01no234_a11.b1 PHD_FILE: MSMg01no234_a11.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:50:52 2005
         (422 letters)



>mm_chr6_115386963_115387784
          Length = 822

 Score =  793 bits (410), Expect = 0.0
 Identities = 419/422 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   cttggctgcaagagggctcactaggcaaagtttgggttcccttgtcaaatatctgcatag 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 622 cttggctgcaagagggctcactaggcaaagtttgggttcccttgtcaaatatctgcatag 563

                                                                       
Query: 61  taagtacccaaacaatcttcagttatctatgttatggtgtaaacattgcacaccaaaaag 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 562 taagtacccaaacaatcttcagttatctatgttatggtgtaaacattgcacaccaaaaag 503

                                                                       
Query: 121 aagagtgtgcattggtgataacttagaggacgtcctggtcttagtgacatctagaaagaa 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 502 aagagtgtgcattggtgataacttagaggacgtcctggtcttagtgacatctagaaagaa 443

                                                                       
Query: 181 gtctgtactcctaattatcaggaatacccatcaaactatatcatttgcctcaaaatccct 240
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 442 gtctgtactcctaattagcaggaatacccatcaaactatatcatttgcctcaaaatccct 383

                                                                       
Query: 241 cctcatggacctagccagagtcactgcatttactttccctaatatgtttaattttcatct 300
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 382 cctcatggacccagccagagtcactgcatttactttccctaatatgtttaattttcatct 323

                                                                       
Query: 301 ctctctgttcttactctttgttatcagttattttcctctcacaagtttcctttcttgtct 360
           || |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 322 ctttctgttcttactctttgttatcagttattttcctctcacaagtttcctttcttgtct 263

                                                                       
Query: 361 agattgtaatattcttaaagtttgctgcttctcatggtatatgttgcgattgactgagtt 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 262 agattgtaatattcttaaagtttgctgcttctcatggtatatgttgcgattgactgagtt 203

             
Query: 421 aa 422
           ||
Sbjct: 202 aa 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: 19
Number of extensions: 2
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: 422
Length of database: 822
Length adjustment: 9
Effective length of query: 413
Effective length of database: 813
Effective search space:   335769
Effective search space used:   335769
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= MSMg01no234_a11.g1 MSMg01no234_a11.g1 CHROMAT_FILE:
MSMg01no234_a11.g1 PHD_FILE: MSMg01no234_a11.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:50:52 2005
         (284 letters)



>mm_chr6_115277376_115278059
          Length = 684

 Score =  511 bits (264), Expect = e-149
 Identities = 279/284 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   tttgggtcacatgaaactaaactaaatcttgaatataataaaaattttccatggagctgt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 201 tttgggtcacatgaaactaaactaaatcttgaatataataaaaattttctatggagctgt 260

                                                                       
Query: 61  taccttcgctttagttgaattttggttgcatctgaagaaatggaaacacagggccggtgg 120
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 caccttcgctttagttgaattttggttgcatctgaagaaatggaaacacagggccggtgg 320

                                                                       
Query: 121 tgtatagagctcagtggtggttgtttgtccagcatgcatgtggccccaggttctatcctc 180
           ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 321 tgtatagagctcagtggtggttgtttgtccagcatgcatgtggtcccaggttctatcctc 380

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

                                                       
Query: 241 taattatattaagcagaatcgggagtttaaaaaggtttatccaa 284
           ||||||||  ||||||||||||||||||||||||||||||||||
Sbjct: 441 taattatagcaagcagaatcgggagtttaaaaaggtttatccaa 484


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: 284
Length of database: 684
Length adjustment: 9
Effective length of query: 275
Effective length of database: 675
Effective search space:   185625
Effective search space used:   185625
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)