BAC Information

Click to search

BAC

Clone NameMSMg01-438D06
Chromosome13 (Build37)
Map Location 64,442,848 - 64,589,258
singlet/doubletdoublet
Overlap geneCtsl, Ccrk, LOC665612, 1190003K10Rik
Upstream geneFancc, Ptch1, C030010C08Rik, 0610007P08Rik, 9330134C04Rik, EG665575, Hsd17b3, Slc35d2, Zfp367, Habp4, Cdc14b, 1110018J18Rik
Downstream geneLOC218298, Ppia-ps13_866.1, LOC238678, LOC631470, Cntnap3, EG432767, 4930458L03Rik, LOC218301, LOC628515, 4932441B19Rik, Gm274, Hiatl1, LOC100042311, Olfr465-ps1, Olfr466, Nlrp4f, ENSMUSG00000074847, Zfp369, LOC100042347, LOC100042341, LOC665738, EG665742, LOC665750, LOC665753, EG544944, EG665767, LOC665777
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-438D06.T7 (MSMg01no438_d06.b1)MSMg01-438D06.TJ (MSMg01no438_d06.g1)
ACCAG528853AG528854
length796778
length of high quality
(start - end)
255 (70 - 324)509 (69 - 577)
definitionCHROMAT_FILE: MSMg01no438_d06.b1 PHD_FILE: MSMg01no438_d06.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:03:53 2005CHROMAT_FILE: MSMg01no438_d06.g1 PHD_FILE: MSMg01no438_d06.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:03:53 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(64,442,848 - 64,443,102)(64,588,789 - 64,589,258)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCTAG
CCCAACCTGCCCTGAATAGTGAGACCCTGTCTCTCTCAAACAAACAAGAA
TAGAAGAAATTGGTGTAATTGCATATACCTATAAGCCTTGGTCTCAGGGA
GGTGAGAGGGGAGGACATAATGAGACCTTTTGGATCCTATCAGGGGACAT
AGTGAGATAGTCTAAGGAAGGAAGTCTATGAAGAAAAACACGTGAGAAAA
GAAGTCACAAATCCCCAAAGGAATATTTTATAGAACAAAGAGTTCTCTAG
ATCAGTAATAGATATGGGGGAGAGTGAGTTAAATGGGCACTTCTCTCCAA
GTAAAAACATGCTCATTATTAAATATCAGGGGAAGGCTAATTTAACCCAC
ATAGAACTACTGCCCCCCCCCCTAATGTAGTAGATTACATAGTGCATACA
GAATAAATACCGATATTTATTGAATGCTATGTCTGGTGTACATCTTGGTC
CATCTAGATCGGTTCTATGTTTAATGGTCTCTGCTGCTCCATACTTTATC
TTGTCGTCTTTCTTTGCTTCTCTCTGTGTCAAACATTTTATTCCTTCTAG
TTGTTTCTTTGACTTCTATTTTTCTTTCTCTTATGTTCCCTTCCTTCTTT
TTTTCTCTTATCATCTCTCCCCCTTTTTTTCTCTCTTCTCTCCATCATTT
TTTTGGTTTCTTTCTTTTTTTAGTTTTTTTTTTTTTCTTCTTTCGTTTTT
CTGTCTTTTTTCTTGTGGGTATCTGTTTTTCCCGTCTGTTTCTTTG
TXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXTTCACACTGAATCCATTGGCATGGAGATAAAA
GTAAATGATGTTATGCATGCCCTTGGAGACAGGAGACTGCTGTGGTCAGG
CTGCAAGAGAGCCCAGGGTTCACATACAGAGAGAGAGCACTGTTCCTGCC
TGGAGAGATGTCAGTAAGCCACCAAAGTTGAACACTTCTCTTACTCAGAA
AGGGCAAAAGAAATCCCTTCTCTTACTTTCTTTCATTGACTAGGTCCTAG
GATATCTTAAGTGACAATGTTTGTTCTCCAGCAAGTTCTTTTAATAAAAA
ATAAAAATAAACAGTCATTTAGAAAAAAAATCACTAAATTAATTAAGAAC
AACTAAATACCTATTAAATGCTTCCATTCAACCAAAATACCAAGACCAAT
TTCTTTAAAAACTAGACCCCACTAAGTCACAAACACCCAAACACTGAGGA
GGTACCTGTCAGTCATGGGAGAGCTCTGAGATCCTCAACAGAGAGAGAAT
GCACTTTGCCTTTTTCAAAGGATAGGAGTGGAGAGGGAACTCTGAAGCTG
TGAGGCCTTAACCAAGTTAACTAATGCTTCCAAGCATCAGCTTCCTCCTG
TACAAAAGGGGTAATTAACTAGCCTCACGACAGGCCTCCATAATAGTTCT
CTTATTGATGAGAGCTAAATTTTTTTTAATACTTACCCCTGTTTTAACCC
CCAAAAAGTCCCCCACTTTTCTTGTTAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no438_d06.b1 MSMg01no438_d06.b1 CHROMAT_FILE:
MSMg01no438_d06.b1 PHD_FILE: MSMg01no438_d06.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:03:53 2005
         (255 letters)



>mm_chr13_64442648_64443302
          Length = 655

 Score =  485 bits (251), Expect = e-142
 Identities = 254/255 (99%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  tataagccttggtctcagggaggtgagaggggaggacataatgagaccttttggatccta 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 tataagccttggtctcagggaggtgagaggggaggacataatgagaccttttggatccta 320

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

                                                                       
Query: 181 agaagtcacaaatccccaaaggaatattttatagaacaaagagttctctagatcagtaat 240
           |||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct: 381 agaagtcacaaatccccaaaggaatattttatagaacaaagagttctctaaatcagtaat 440

                          
Query: 241 agatatgggggagag 255
           |||||||||||||||
Sbjct: 441 agatatgggggagag 455


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: 255
Length of database: 655
Length adjustment: 9
Effective length of query: 246
Effective length of database: 646
Effective search space:   158916
Effective search space used:   158916
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)
Query= MSMg01no438_d06.g1 MSMg01no438_d06.g1 CHROMAT_FILE:
MSMg01no438_d06.g1 PHD_FILE: MSMg01no438_d06.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:03:53 2005
         (509 letters)



>mm_chr13_64588789_64589697
          Length = 909

 Score =  901 bits (466), Expect = 0.0
 Identities = 469/470 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   ttcacactgaatccattggcatggagataaaagtaaatgatgttatgcatgcccttggag 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 470 ttcacactgaatccattggcatggagataaaagtaaatgatgttatgcatgcccttggag 411

                                                                       
Query: 61  acaggagactgctgtggtcaggctgcaagagagcccagggttcacatacagagagagagc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 410 acaggagactgctgtggtcaggctgcaagagagcccagggttcacatacagagagagagc 351

                                                                       
Query: 121 actgttcctgcctggagagatgtcagtaagccaccaaagttgaacacttctcttactcag 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 350 actgttcctgcctggagagatgtcagtaagccaccaaagttgaacacttctcttactcag 291

                                                                       
Query: 181 aaagggcaaaagaaatcccttctcttactttctttcattgactaggtcctaggatatctt 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 290 aaagggcaaaagaaatcccttctcttactttctttcattgactaggtcctaggatatctt 231

                                                                       
Query: 241 aagtgacaatgtttgttctccagcaagttcttttaataaaaaataaaaataaacagtcat 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 230 aagtgacaatgtttgttctccagcaagttcttttaataaaaaataaaaataaacagtcat 171

                                                                       
Query: 301 ttagaaaaaaaatcactaaattaattaagaacaactaaatacctattaaatgcttccatt 360
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 170 ttagaaaaaaaatcactaaattaattaagaacaactaaatacctattaaatgcttcaatt 111

                                                                       
Query: 361 caaccaaaataccaagaccaatttctttaaaaactagaccccactaagtcacaaacaccc 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 110 caaccaaaataccaagaccaatttctttaaaaactagaccccactaagtcacaaacaccc 51

                                                             
Query: 421 aaacactgaggaggtacctgtcagtcatgggagagctctgagatcctcaa 470
           ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 50  aaacactgaggaggtacctgtcagtcatgggagagctctgagatcctcaa 1


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: 509
Length of database: 909
Length adjustment: 10
Effective length of query: 499
Effective length of database: 899
Effective search space:   448601
Effective search space used:   448601
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)