BAC Information

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BAC

Clone NameMSMg01-110L08
Chromosome13 (Build37)
Map Location 55,415,382 - 55,542,382
singlet/doubletdoublet
Overlap geneNsd1, Rab24, Prelid1, Mxd3, Lman2, Rgs14, Slc34a1, Pfn3, F12
Upstream geneCplx2, Thoc3, LOC100040543, 4732471D19Rik, 4833439L19Rik, Arl10, D13Wsu177e, Higd2a, Cltb, Ubxd8, Rn4.5s-ps3, Rnf44, BC040758, Gprin1, Sncb, Eif4e1b, Tspan17, Unc5a, Hk3, Uimc1, LOC622707, Zfp346, Fgfr4
Downstream geneGprk6, Prr7, Dbn1, Pdlim7, Dok3, Ddx41, BC021381, Tmed9, B4galt7, Caml, Ddx46, B230219D22Rik, 2310047H23Rik, Pcbd2, Catsper3, Pitx1, H2afy, BC027057, Neurog1, Cxcl14, LOC100040926, AU042651
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-110L08.T7 (MSMg01no110_l08.b1)MSMg01-110L08.TJ (MSMg01no110_l08.g1)
ACCAG323565AG323566
length748714
length of high quality
(start - end)		342 (43 - 384)422 (73 - 494)
definitionCHROMAT_FILE: MSMg01no110_l08.b1 PHD_FILE: MSMg01no110_l08.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:14:23 2005CHROMAT_FILE: MSMg01no110_l08.g1 PHD_FILE: MSMg01no110_l08.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:14:23 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(55,415,382 - 55,415,720)(55,541,961 - 55,542,382)
sequence
ATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAAT
TCAATTCCACTGGTCAACTTGGAAAGTGTAGGGGCTCTCAAGGCTATTTC
CCTAGCCGAACCATGTCCCATTGAGAACCCTGTAAACCCTTTTGGAGAAC
CTGGTGTTCATTCACATCACTGGCAGTTTCCTGAATATTGATATGTGCAA
GGGCAGGGGGCCAGTCATTATTGTGAGACAGAATTACATAAGGCTCGATC
CCAAAGAGCCTAACTTGCCTGCTTGGGTCCCCAGATTTCAAGGACCTTTG
ACCAGGGAACAACAGAAAGTACTTATAGGCCATGGGTTTCCAGTTCTGTT
TTCAAGTGGTTTGTTAATGTTTTGGGTTTTTTGTTTTTNTGGAACCTTAA
TTTATTTCCTTCTTTATTTAATTTCTATATCTCTTTCATTCTTACTTCTT
TTCTATTCCTCTATTCTCATTTCCCTCCTTTCGCCTCTTCTTCTTCCACT
CTTTACGCATAATACATTCACTTATTAACCCCCCACTATTTCATAAAATC
CTCCCTTTTATATCACCCTATACCCCCTTTACCCACCCATTACACCCCCC
CACACCCTCTTTATATTTTTTCTTTTCTTCTCCCCCCCCGTTTTTCTCAC
TTTTATTTTTTTCTCTATCTCTATTCATATTTTCTCCTAAATTTTTTACC
TTATCTTCTATCACCGTTTACTTCTCTTCGTTCTTTCCGCCTTATTTT

TACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXCAGGGTAGGTGACCTCTATGTTAATCTG
TTAGGTCCATCTCTACAGATATTCCATTACCCGGGTGTGGGGGGCTGGAA
ACTGCTGCTGACCCATTGTCCTTGCCTCAGGCTAGATTACTGCCAATTTG
AAGCCTGTCATGGAATCAGCCTAGCCTTCTCAAACCAGAATCCAGTTCCT
CAGTCCCCTGAAGCCATAGTTTGTGTGCTTGTAGTCATGTAAAAGGTCCA
TTGGGTTGAGCTGTTAGCGGGAAGGGGAGCTGCCTCTTGGCAGCCTTCCC
TATGTCAAGCGGGGTGACTGGGTGAGTAAGGGTACCAAGATGTTGAAGAC
GATGGACTGGGTACTGTCTGGTCCCCCCAATTCCTTTTGAACAAGTATGT
CTGCAACCTCTTGAAAGCCATGCCCCAAGTCTCTGCTAAAAAGAAATGGA
GCTGATTATGGGACAGGCCTATAATCTTGCTTATAGAGCCTGGCAAGAGG
GGCGAGGCTTTATAGCCTGCCTGACTTACTCTGTTCTTGCTTTCTTCCGA
GCATCACACCTCTATAAATTACATTTTGCCGTTTTCCATTCCTCAACCCC
CTCTCCCCACCTTTCTTCCCTCCACCCCCCTCTTCATTTTTTATCTTTTC
CACCCCCCCCCAAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no110_l08.b1 MSMg01no110_l08.b1 CHROMAT_FILE:
MSMg01no110_l08.b1 PHD_FILE: MSMg01no110_l08.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:14:23 2005
         (342 letters)



>mm_chr13_55415179_55415920
          Length = 742

 Score =  640 bits (331), Expect = 0.0
 Identities = 337/339 (99%)
 Strand = Plus / Plus

                                                                       
Query: 4   ggaattcaattccactggtcaacttggaaagtgtaggggctctcaaggctatttccctag 63
           ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 204 ggaattcgattccactggtcaacttggaaagtgtaggggctctcaaggctatttccctag 263

                                                                       
Query: 64  ccgaaccatgtcccattgagaaccctgtaaacccttttggagaacctggtgttcattcac 123
           ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264 ccgaaccgtgtcccattgagaaccctgtaaacccttttggagaacctggtgttcattcac 323

                                                                       
Query: 124 atcactggcagtttcctgaatattgatatgtgcaagggcagggggccagtcattattgtg 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 324 atcactggcagtttcctgaatattgatatgtgcaagggcagggggccagtcattattgtg 383

                                                                       
Query: 184 agacagaattacataaggctcgatcccaaagagcctaacttgcctgcttgggtccccaga 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 384 agacagaattacataaggctcgatcccaaagagcctaacttgcctgcttgggtccccaga 443

                                                                       
Query: 244 tttcaaggacctttgaccagggaacaacagaaagtacttataggccatgggtttccagtt 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 444 tttcaaggacctttgaccagggaacaacagaaagtacttataggccatgggtttccagtt 503

                                                  
Query: 304 ctgttttcaagtggtttgttaatgttttgggttttttgt 342
           |||||||||||||||||||||||||||||||||||||||
Sbjct: 504 ctgttttcaagtggtttgttaatgttttgggttttttgt 542


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: 16
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: 342
Length of database: 742
Length adjustment: 9
Effective length of query: 333
Effective length of database: 733
Effective search space:   244089
Effective search space used:   244089
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= MSMg01no110_l08.g1 MSMg01no110_l08.g1 CHROMAT_FILE:
MSMg01no110_l08.g1 PHD_FILE: MSMg01no110_l08.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:14:23 2005
         (422 letters)



>mm_chr13_55541567_55542388
          Length = 822

 Score =  816 bits (422), Expect = 0.0
 Identities = 422/422 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   cagggtaggtgacctctatgttaatctgttaggtccatctctacagatattccattaccc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 816 cagggtaggtgacctctatgttaatctgttaggtccatctctacagatattccattaccc 757

                                                                       
Query: 61  gggtgtggggggctggaaactgctgctgacccattgtccttgcctcaggctagattactg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 756 gggtgtggggggctggaaactgctgctgacccattgtccttgcctcaggctagattactg 697

                                                                       
Query: 121 ccaatttgaagcctgtcatggaatcagcctagccttctcaaaccagaatccagttcctca 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 696 ccaatttgaagcctgtcatggaatcagcctagccttctcaaaccagaatccagttcctca 637

                                                                       
Query: 181 gtcccctgaagccatagtttgtgtgcttgtagtcatgtaaaaggtccattgggttgagct 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 636 gtcccctgaagccatagtttgtgtgcttgtagtcatgtaaaaggtccattgggttgagct 577

                                                                       
Query: 241 gttagcgggaaggggagctgcctcttggcagccttccctatgtcaagcggggtgactggg 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 576 gttagcgggaaggggagctgcctcttggcagccttccctatgtcaagcggggtgactggg 517

                                                                       
Query: 301 tgagtaagggtaccaagatgttgaagacgatggactgggtactgtctggtccccccaatt 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 516 tgagtaagggtaccaagatgttgaagacgatggactgggtactgtctggtccccccaatt 457

                                                                       
Query: 361 ccttttgaacaagtatgtctgcaacctcttgaaagccatgccccaagtctctgctaaaaa 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 456 ccttttgaacaagtatgtctgcaacctcttgaaagccatgccccaagtctctgctaaaaa 397

             
Query: 421 ga 422
           ||
Sbjct: 396 ga 395


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: 20
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)


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