BAC Information

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BAC

Clone NameMSMg01-504F11
Chromosome5 (Build37)
Map Location 39,058,427 - 39,252,286
singlet/doubletdoublet
Overlap gene6820424L24Rik, Clnk
Upstream geneStk32b, Cytl1, Msx1, Stx18, Nsg1, LOC100040397, Zfp509, Lyar, Tmem128, Otop1, Drd5, 4930487D11Rik, Slc2a9, Wdr1, 4930421P07Rik
Downstream geneLOC384174, Hs3st1, EG665839
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-504F11.T7 (MSMg01no504_f11.b1)MSMg01-504F11.TJ (MSMg01no504_f11.g1)
ACCAG579244AG579245
length757775
length of high quality
(start - end)
661 (49 - 709)588 (74 - 661)
definitionCHROMAT_FILE: MSMg01no504_f11.b1 PHD_FILE: MSMg01no504_f11.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:31:55 2005CHROMAT_FILE: MSMg01no504_f11.g1 PHD_FILE: MSMg01no504_f11.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:31:55 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(39,058,427 - 39,059,081)(39,251,754 - 39,252,286)
sequence
NAACTTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCG
CGGAATTCTTTTTTCTCTTATGGACTTCTATGAAGTTTAGTTTCTTTCAA
AAGTTTCTAACAACAACAATAACAACAACAAAAAGTTTCTAACAGTTCAC
TAGTTAGTAAAATGGGCCGAAATGTCTGGTTATTTACAGGAAATTCAAAT
GTCCAATAAACACTAACAAAGATATATCATTTCATTACTATCAGAGATAC
AGATGAAGGCAATATAGACATTCAACTTTGGTACTGCTAAATATTATGTT
GAGGTTGTTTTTTCTCCATGTCTTAACCTACTTAAAAAAAAAAAGGTTTA
GCATGTGTGTAAATATAAATGCCAGTGTGTCAGAGTATGGCCATGGCCAT
CGCTGTGTGGATGGGCCAGCTGGGTACCACTGGATTCTTGCAGCTTCAGT
TTGAAATGTGGGTATGGTGACCATTTAAGATGGAAACAATGTGAGACAAC
TTTCTGTTAAACAACAGCTCAGTGTTTTGGCAAAATTGCTTTTGGCTATA
GCTTAAATTTTTAACATCAAAATTGAAAATATGGAAACATACCAGATTCC
TAAATTTTTAAAAAAAACACTAATCTGAGCATACTGAAAACACCAAAGTA
TTTTAAAGGTGCTGGCAAAGCAGTTATAACTGCCATTGCATTTTCTTGTT
ATTGATAGGTGGTTTGTGTTATATTTCTATTGTGGTGACTGTGCTGTGGT
CAATGAA
NCCCGATGCAGTGGGAGGCCTGGCGGCCGCCTTTTTCAAAAAGGTAGGTG
ACCTATAGAAGGCTCCGAAGAAGTCTTCTTCCCTTTAATTGTTGCTGTCA
AATATGTTGTCACAGTGATATGGAAAGTAGCAAATGCAGGTACTAACTCT
GAACTCGGTTTACTTAGATATTTATTGACCTTACTGACCTTTTGACTTGG
TTACATGGCAGATCGAGAAGCAGGTTGATAGCACCAGAGAGGGTGTGCTA
AAAGTGTCCGAGTGTCTCTCAAGCCCTGGCTCCACTTTACAGCTGTGTGA
TCCTGGGGGAGTTACCTTTCTCTGTGGGTGGCTGAGAAATTACAGAGCCG
TCTGGACAGCGGGATGTGGCCTACAGAGGGAAGAACAACTTGGCTTTCAG
TGGCTCCCAGAGGAGCACTTGGTGGCACGCAGAGAATGGTTCATTATGGC
AAATAAATGCCGACTTAGAGCAGGCACTGCTATAACCCAAGGGGAAAGCT
CTGGTAACAGAGCACCCACAGACCCCATGGGAGGTCAGCATTGGGCAGAC
TAACCTCTGTCCCACAGGATGGGGAAGCTAGAGCCCATCCTAGGCCCTTA
TTCTTACTGCAGAGGAGTGAGCAGGGAACTCCCTGGCATACCGTCTGAAG
ATGGGCTTGTCACCTGGACTGCAGTTCAGCTCAGAGCATCTCAGCTCTCT
TTTCTCTGTGTGGCTGAAGCAAGTGCATCCGTACAACATCTTTAGTATTT
CTGAACTTCAGCATCCCTGGCCAGN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no504_f11.b1 MSMg01no504_f11.b1 CHROMAT_FILE:
MSMg01no504_f11.b1 PHD_FILE: MSMg01no504_f11.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:31:55 2005
         (661 letters)



>mm_chr5_39058222_39059281
          Length = 1060

 Score = 1197 bits (619), Expect = 0.0
 Identities = 648/661 (98%), Gaps = 10/661 (1%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcttttttctcttatggacttctatgaagtttagtttctttcaaaagtttctaaca 64
           |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 206 gaattcttttttct-ttatggacttctatgaagtttagtttctttcaaaagtttctaaca 264

                                                                       
Query: 65  acaacaataacaacaacaaaaagtttctaacagttcactagttagtaaaatgggccgaaa 124
           |||||||||||| ||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 265 acaacaataacagcaacaaaaagtttctaatagttcactagttagtaaaatgggccgaaa 324

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

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

                                                                       
Query: 245 attatgttgaggttgttttttctccatgtcttaacctacttaaaaaaaaaaa---ggttt 301
           ||||||||||||||||||||||||||||||||||||||||||||||||||||   |||||
Sbjct: 445 attatgttgaggttgttttttctccatgtcttaacctacttaaaaaaaaaaaaaaggttt 504

                                                                       
Query: 302 agcatgtgtgtaaatataaatgccagtgtgtcagagtatggccatggccatcgctgtgtg 361
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 agcatgtgtgtaaatataaatgccagtgtgtcagagtatggccatggccatcgctgtgtg 564

                                                                       
Query: 362 gatgggccagctgggtaccactggattcttgcagcttcagtttgaaatgtgggtatggtg 421
           ||||||||||||||||||||||||||||||||||||||||    ||||||||||||||||
Sbjct: 565 gatgggccagctgggtaccactggattcttgcagcttcag----aaatgtgggtatggtg 620

                                                                       
Query: 422 accatttaagatggaaacaatgtgagacaactttctgttaaacaacagctcagtgttttg 481
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 accatttaagatggaaacaatgtgagacaactttctgttaaacaacagctcagtgttttg 680

                                                                       
Query: 482 gcaaaattgcttttggctatagcttaaatttttaacatcaaaattgaaaatatggaaaca 541
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 gcaaaattgcttttggctatagcttaaatttttaacatcaaaattgaaaatatggaaaca 740

                                                                       
Query: 542 taccagattcctaaatttt-taaaaaaaacactaatctgagcatactgaaaacaccaaag 600
           ||||||||||||||||| | |||||||| |||||||||||||||||||||||||||||||
Sbjct: 741 taccagattcctaaattatataaaaaaa-cactaatctgagcatactgaaaacaccaaag 799

                                                                       
Query: 601 tattttaaaggtgctggcaaagcagttataactgccattgcattttcttgttattgatag 660
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 800 tattttaaaggtgctggcaaagcagttataactgccattgcattttcttgttattgatag 859

            
Query: 661 g 661
           |
Sbjct: 860 g 860


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: 34
Number of extensions: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 661
Length of database: 1060
Length adjustment: 10
Effective length of query: 651
Effective length of database: 1050
Effective search space:   683550
Effective search space used:   683550
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= MSMg01no504_f11.g1 MSMg01no504_f11.g1 CHROMAT_FILE:
MSMg01no504_f11.g1 PHD_FILE: MSMg01no504_f11.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:31:55 2005
         (588 letters)



>mm_chr5_39251301_39252289
          Length = 989

 Score =  953 bits (493), Expect = 0.0
 Identities = 523/533 (98%), Gaps = 1/533 (0%)
 Strand = Plus / Minus

                                                                       
Query: 57  gcaaatgcaggtactaactctgaactcggtttacttagatatttattgaccttactgacc 116
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 986 gcaaatgcaggtactaactctgaactcggtttacttagatatttattgaccttaccgacc 927

                                                                       
Query: 117 ttttgacttggttacatggcagatcgagaagcaggttgatagcaccagagagggtgtgct 176
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 926 ttttgacttggttacatggcagatcgagaagcaggttgatagcaccagagagggtgtgct 867

                                                                       
Query: 177 aaaagtgtccgagtgtctctcaagccctggctccactttacagctgtgtgatcctggggg 236
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 866 aaaagtgtccgagtgtctctcaagccctggctccactttacagctgtgtgatcctggggg 807

                                                                       
Query: 237 agttacctttctctgtgggtggctgagaaattacagagccgtctggacagcgggatgtgg 296
           ||||||||  ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 806 agttacctaactctgtgggtggctgagaaattacagagccgtctggacagcgggatgtgg 747

                                                                       
Query: 297 cctacagagggaagaacaacttggctttcagtggctcccagaggagcacttggtggcacg 356
           |||||||||||||||||||||||||||||||||||||||||| || ||||||||||||| 
Sbjct: 746 cctacagagggaagaacaacttggctttcagtggctcccagaagaacacttggtggcaca 687

                                                                       
Query: 357 cagagaatggttcattatggcaaataaatgccgacttagagcaggcactgctataaccca 416
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 686 cagagaatggttcattatggcaaataaatgccgacttagagcaggcactgctataaccca 627

                                                                       
Query: 417 aggggaaagctctggtaaca-gagcacccacagaccccatgggaggtcagcattgggcag 475
           |||| ||||||||||||||| |||||||||||||||||||||||| ||||||||||||||
Sbjct: 626 agggaaaagctctggtaacatgagcacccacagaccccatgggagttcagcattgggcag 567

                                                                       
Query: 476 actaacctctgtcccacaggatggggaagctagagcccatcctaggcccttattcttact 535
           ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 566 actaacctctgtcccacaggatggggaagctggagcccatcctaggcccttattcttact 507

                                                                
Query: 536 gcagaggagtgagcagggaactccctggcataccgtctgaagatgggcttgtc 588
           |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 506 gcagaggagtgagcagggaactccctggcataccgtctgaagatgggcttgtc 454


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: 26
Number of extensions: 3
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 588
Length of database: 989
Length adjustment: 10
Effective length of query: 578
Effective length of database: 979
Effective search space:   565862
Effective search space used:   565862
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)