BAC Information

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BAC

Clone NameMSMg01-458D07
Chromosome6 (Build37)
Map Location 51,926,757 - 52,052,256
singlet/doubletdoublet
Overlap geneSkap2
Upstream geneEG625167, 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, LOC666259
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-458D07.T7 (MSMg01no458_d07.b1)MSMg01-458D07.TJ (MSMg01no458_d07.g1)
ACCAG544090AG544091
length752746
length of high quality
(start - end)		623 (51 - 673)326 (332 - 657)
definitionCHROMAT_FILE: MSMg01no458_d07.b1 PHD_FILE: MSMg01no458_d07.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:30:43 2005CHROMAT_FILE: MSMg01no458_d07.g1 PHD_FILE: MSMg01no458_d07.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:30:43 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(52,051,639 - 52,052,256)(51,926,757 - 51,927,082)
sequence
NNGGGCTTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCAGAGAAT
CCGCGGAATTCAAAGACCCTGCCTGGAATTAGTTAAGTGGGTTTCCCTGT
TTCCATAATGAGTTTCACAACTGCTCATAGAACATAGCTATTAATTACTA
GCGAATAGGCTTTATTGAGGTCTGAAATGGGGAAGAGCTATTTATTTGGA
GTAAGTCTAGGCCCTTGTAGGTATTTCCTTGTGTTGTGTGAACATTTACA
CTGTTAGAGGCAAACTGATGATACCACCTTATGAGACTCAAGGGAGCGGC
TGAGCAGTGAGTGGGGAGACACGGCGCTATGCGATGGAGGGAGAAAACTC
AATTCCTTGTGAAATGGTAGCTGAGAGCTCTTTCAGAGCAGGTGCACTGT
TCATGCGCGGTCTCCAAGCTAAGTGGATCTCAAATCAGATTCTGTGAAGT
AGAAACCACATTAAAAATTGTATTTAGATCCAAAGTCTCTTTCCTTCCCA
CAGGAATTACAATTTCGATCAAATAAGTGCTGAATAGTATTACCATTTCT
CCCTTGCTATGGTGTGTCTAAGAATGGTTTGTGACAGAAAGTCTTTTTAG
AGCCTTGCTTTCAACATGCGTTTATGTTTTAATGATATATCCTCCACCTG
TAAAAATGTAGTTCTAGCCCACAGATAATCAACACATTTGAAGCTTTCTT
GGGATATTTAGGCTGTCAACAGTGGGCTTTCTGACATCTGACATTACTGG
GN

NNTTCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXATTTTTCTATAGCCCACCTCC
TTCTGCTAGACAGTAGAATAAAATGCATGTTAACCATTCCAGTCAGCACA
TGAATCACTCCAGTGACATCTGATTTAGCTCTTCTCCCCGAGTGACATTC
ACTGCTCCTTTTCTTCACATACTTAGAACCAAAGGAATTATTAACAACTG
GACCTTATCGTCACATCACAAGCAAATTACATCAGTTTAGCCGTGCATTT
TGCCCAACATTCTGAAAATGTTCTGTCTTTGTCAACTTTGTAGTTACTGC
TTGCTAATATGGTGGTATGAAAATAATCCCCACTAAATCAGTTCATGAGT
TTCAAATATCCTTATGCCAGCAACTAAAAAGACTCAAGGTATGCATTTTC
AACATCGGTATCCTTTCGTTATTATGAAGCAACATAGATTACATAGCATC
TAATTAAAAACAAACTCAAGAGAAACACTTTCACATGAATGAGCAACTCT
TAAAAACTTCCTAAAGAATATGAAGATCATGTTCCATGAAGAATTAACAC
AAATGTGATCAATTAAGTCCCTGTCGAAATGAGCTACTCTATACAAAGAA
CCCTTAAGAGTTTAAGAAATTAGTTTTATAATATTTACTTTAGAAAAAAA
TATGTCTGGGTTACTATGTGTTATGGAAAATGGCTTAAGTTTTATG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no458_d07.b1 MSMg01no458_d07.b1 CHROMAT_FILE:
MSMg01no458_d07.b1 PHD_FILE: MSMg01no458_d07.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:30:43 2005
         (623 letters)



>mm_chr6_52051434_52052456
          Length = 1023

 Score = 1156 bits (598), Expect = 0.0
 Identities = 613/618 (99%)
 Strand = Plus / Minus

                                                                       
Query: 6   gaattcaaagaccctgcctggaattagttaagtgggtttccctgtttccataatgagttt 65
           ||||||||||||||||| |||||||||||||||||||||||||| |||||||||||||||
Sbjct: 823 gaattcaaagaccctgcttggaattagttaagtgggtttccctgcttccataatgagttt 764

                                                                       
Query: 66  cacaactgctcatagaacatagctattaattactagcgaataggctttattgaggtctga 125
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 763 cacaactgctcatagaacatagctattaattactagcgaataggctttattgaggtctga 704

                                                                       
Query: 126 aatggggaagagctatttatttggagtaagtctaggcccttgtaggtatttccttgtgtt 185
           |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 703 aatggggaagagctatttatttggagtaagtctaggccattgtaggtatttccttgtgtt 644

                                                                       
Query: 186 gtgtgaacatttacactgttagaggcaaactgatgataccaccttatgagactcaaggga 245
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 643 gtgtgaacatttacactgttagaggcaaactgatgataccaccttatgagactcaaggga 584

                                                                       
Query: 246 gcggctgagcagtgagtggggagacacggcgctatgcgatggagggagaaaactcaattc 305
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 583 gcggctgagcagtgagtggggagacacggcgctatgcgatggagggagaaaactcaattc 524

                                                                       
Query: 306 cttgtgaaatggtagctgagagctctttcagagcaggtgcactgttcatgcgcggtctcc 365
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 523 cttgtgaaatggtagctgagagctctttcagagcaggtgcactgttcatgcgcggtctcc 464

                                                                       
Query: 366 aagctaagtggatctcaaatcagattctgtgaagtagaaaccacattaaaaattgtattt 425
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 463 aagctaagtggatctcaaatcagattctgtgaagtagaaaccacattaaaaattgtattt 404

                                                                       
Query: 426 agatccaaagtctctttccttcccacaggaattacaatttcgatcaaataagtgctgaat 485
           ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||| 
Sbjct: 403 agatccaaagtctctttccttcccacaggaattacaatttctatcaaataagtgctgaac 344

                                                                       
Query: 486 agtattaccatttctcccttgctatggtgtgtctaagaatggtttgtgacagaaagtctt 545
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 343 agtattaccatttctcccttgctatggtgtgtctaagaatggtttgtgacagaaagtctt 284

                                                                       
Query: 546 tttagagccttgctttcaacatgcgtttatgttttaatgatatatcctccacctgtaaaa 605
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 283 tttagagccttgctttcaacatgcgtttatgttttaatgatatatcctccacctgtaaaa 224

                             
Query: 606 atgtagttctagcccaca 623
           ||||||||||||||||||
Sbjct: 223 atgtagttctagcccaca 206


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: 25
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: 623
Length of database: 1023
Length adjustment: 10
Effective length of query: 613
Effective length of database: 1013
Effective search space:   620969
Effective search space used:   620969
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= MSMg01no458_d07.g1 MSMg01no458_d07.g1 CHROMAT_FILE:
MSMg01no458_d07.g1 PHD_FILE: MSMg01no458_d07.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:30:43 2005
         (326 letters)



>mm_chr6_51926557_51927282
          Length = 726

 Score =  607 bits (314), Expect = e-178
 Identities = 323/326 (99%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  ttcatgagtttcaaatatccttatgccagcaactaaaaagactcaaggtatgcattttca 120
           |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 ttcatgagtttcaaatgtccttatgccagcaactaaaaagactcaaggtatgcattttca 320

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

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

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

                                     
Query: 301 agctactctatacaaagaacccttaa 326
           ||||||| |||| |||||||||||||
Sbjct: 501 agctactttataaaaagaacccttaa 526


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: 13
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: 326
Length of database: 726
Length adjustment: 9
Effective length of query: 317
Effective length of database: 717
Effective search space:   227289
Effective search space used:   227289
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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