BAC Information

Click to search

BAC

Clone NameMSMg01-165D16
Chromosome15 (Build37)
Map Location 8,254,863 - 8,411,342
singlet/doubletdoublet
Overlap geneNipbl, EG666437
Upstream geneEgflam, Gdnf, Wdr70, LOC665556, LOC621001, Nup155, 2410089E03Rik, LOC100039599
Downstream geneLOC100039560, LOC100039633, Slc1a3, EG622770, LOC268781, LOC382969, LOC100039619, Ranbp3l, 1110020G09Rik, Skp2, Lmbrd2, LOC666503, Ugt3a1, LOC100039661, Ugt3a2, LOC383094, Capsl
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-165D16.T7 (MSMg01no165_d16.b1)MSMg01-165D16.TJ (MSMg01no165_d16.g1)
ACCAG363453AG363454
length725725
length of high quality
(start - end)
688 (38 - 725)650 (67 - 716)
definitionCHROMAT_FILE: MSMg01no165_d16.b1 PHD_FILE: MSMg01no165_d16.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:33:18 2005CHROMAT_FILE: MSMg01no165_d16.g1 PHD_FILE: MSMg01no165_d16.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:33:18 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(8,254,863 - 8,255,547)(8,410,913 - 8,411,342)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCAGA
GATCTGCCTGCTTTTGCCTCTGCCTTCTGAGTGCTGGAATTAAAAGCATA
CACAACCATACCTGGCTTGTAAGCAATTTATGAAAGGAATGGGGTGTAAT
AAGGCAATTATCTTTAAGTATTTATTAATATTACCAACATGATTAATAGG
GCTTGGGTAACTCAGACTCTTCATCATTCTTTCAGAGACTAATGTCAGTA
GCTACCCATACATACCAATTAAATTACAACCTGACAGTGATATCAAAACA
TATCCAACTAAGTTATTATTTTTATATGTATTTGAACAAAACACTCTAAC
AATAAAACCAAAAGTACAGTACATACTGTTCTCTTATAAATAAGAAAAAA
ATTTATTACCAGCCTCAGGCATGAGAGTTTTAGATTTCTTTTAAAAAGAG
CATTTAATTCAGGTACTGTATTAGTTTCCTGAACCTAATTCTCTATACTC
TAATGTATTTCCAGGAAAGCTGTATAGAGCTGCTTTCAAAACACATTTTA
TTACACTAATGCTTCCAGAAACTGAACATGGATGAGGTATGTATCCCAAC
TGTTTCTATAAGTAAGTCTACATGGATTGCCCATTAACAAGTGACAGATA
TATGTAACAACACTATTTGCTCTGAAAAAGAACAATTTTAAGAAATGCAA
ATTGGACAAAACTTTCATCATGTCC
TXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXACGGTTTGGAGCGTAAGGCATAAATAAAATAATC
GCATCACAGTATCTAAATACAAATTGAGGTAAGCAGGCTAAAGGAAAAAA
AAAACTTATGAGCACACCAGCTTGGTGGAAAATAATGTTGTTCCAAGCAT
TGGGAAAGATGGCTAAGCAGGTGGAACAGAGCACTAAGGCAGAGGGGGAT
GGAGACAAGGCTGGGGCAGTTAGAAACACACCCAAGACTTATTTAAGGCT
CTTATCTCTTATCTTTAAAGTAACACGAGCCATTGAAGACTTTTAAGCAG
CCAAATTACATTATCAAACTTATGTTTTGAAAAGATCACTGTGGCAGCAG
GAGAAAGTTGGGGGCAAGGGATGTATCACTGTGGATGCCAGAAGCCCAGA
CTGTAAGCAATTCCTGTAATGGTAGGTGAGATTGATGGCAGCCATTTTGC
TCATATCTTGAGTTCTGTTATCTATCCAAATCTATAACTGTAAATAATTC
AGCATTTTCACATTTAAAAATGTAGGACTTCAACTGTAATTACTTACCAA
GGAATTATAACTACATTCCACTAAATTGGTGTTTCTGGAAATAAATACAC
AAAATCAACAGATACTTAGAAGATAAAATGAAGAGCTAAGGCCATAGCTC
AGTGGTAGAGCATTGGTTTAGCATG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no165_d16.b1 MSMg01no165_d16.b1 CHROMAT_FILE:
MSMg01no165_d16.b1 PHD_FILE: MSMg01no165_d16.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:33:18 2005
         (688 letters)



>mm_chr15_8254660_8255747
          Length = 1088

 Score = 1309 bits (677), Expect = 0.0
 Identities = 683/685 (99%)
 Strand = Plus / Plus

                                                                       
Query: 4   ggaattcagagatctgcctgcttttgcctctgccttctgagtgctggaattaaaagcata 63
           ||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 204 ggaattcagagatctgcctgcttttgcctctgccttctgagtgctgggattaaaagcata 263

                                                                       
Query: 64  cacaaccatacctggcttgtaagcaatttatgaaaggaatggggtgtaataaggcaatta 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264 cacaaccatacctggcttgtaagcaatttatgaaaggaatggggtgtaataaggcaatta 323

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

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

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

                                                                       
Query: 304 acactctaacaataaaaccaaaagtacagtacatactgttctcttataaataagaaaaaa 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 504 acactctaacaataaaaccaaaagtacagtacatactgttctcttataaataagaaaaaa 563

                                                                       
Query: 364 atttattaccagcctcaggcatgagagttttagatttcttttaaaaagagcatttaattc 423
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 564 atttattaccagcctcaggcatgagagttttagatttcttttaaaaagagcatttaattc 623

                                                                       
Query: 424 aggtactgtattagtttcctgaacctaattctctatactctaatgtatttccaggaaagc 483
           ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct: 624 aggtactgtattagtttcctgtacctaattctctatactctaatgtatttccaggaaagc 683

                                                                       
Query: 484 tgtatagagctgctttcaaaacacattttattacactaatgcttccagaaactgaacatg 543
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 684 tgtatagagctgctttcaaaacacattttattacactaatgcttccagaaactgaacatg 743

                                                                       
Query: 544 gatgaggtatgtatcccaactgtttctataagtaagtctacatggattgcccattaacaa 603
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 744 gatgaggtatgtatcccaactgtttctataagtaagtctacatggattgcccattaacaa 803

                                                                       
Query: 604 gtgacagatatatgtaacaacactatttgctctgaaaaagaacaattttaagaaatgcaa 663
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 804 gtgacagatatatgtaacaacactatttgctctgaaaaagaacaattttaagaaatgcaa 863

                                    
Query: 664 attggacaaaactttcatcatgtcc 688
           |||||||||||||||||||||||||
Sbjct: 864 attggacaaaactttcatcatgtcc 888


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: 35
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: 688
Length of database: 1088
Length adjustment: 10
Effective length of query: 678
Effective length of database: 1078
Effective search space:   730884
Effective search space used:   730884
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= MSMg01no165_d16.g1 MSMg01no165_d16.g1 CHROMAT_FILE:
MSMg01no165_d16.g1 PHD_FILE: MSMg01no165_d16.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:33:18 2005
         (650 letters)



>mm_chr15_8410913_8411965
          Length = 1053

 Score =  793 bits (410), Expect = 0.0
 Identities = 424/430 (98%), Gaps = 3/430 (0%)
 Strand = Plus / Minus

                                                                       
Query: 3   ggtttggagcgtaaggcataaataaaataatcgcatcacagtatctaaatacaaattgag 62
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 430 ggtttggagcgtaagacataaataaaataatcgcatcacagtatctaaatacaaattgag 371

                                                                       
Query: 63  gtaagcaggctaaagg---aaaaaaaaaacttatgagcacaccagcttggtggaaaataa 119
           ||||||||||||||||   |||||||||||||||||||||||| ||||||||||||||||
Sbjct: 370 gtaagcaggctaaaggaaaaaaaaaaaaacttatgagcacaccggcttggtggaaaataa 311

                                                                       
Query: 120 tgttgttccaagcattgggaaagatggctaagcaggtggaacagagcactaaggcagagg 179
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 310 tgttgttccaagcattgggaaagatggctaagcaggtggaacagagcactaaggcagagg 251

                                                                       
Query: 180 gggatggagacaaggctggggcagttagaaacacacccaagacttatttaaggctcttat 239
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 250 gggatggagacaaggctggggcagttagaaacacacccaagacttatttaaggctcttat 191

                                                                       
Query: 240 ctcttatctttaaagtaacacgagccattgaagacttttaagcagccaaattacattatc 299
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 190 ctcttatctttaaagtaacacgagccattgaagacttttaagcagccaaattacattatc 131

                                                                       
Query: 300 aaacttatgttttgaaaagatcactgtggcagcaggagaaagttgggggcaagggatgta 359
           ||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 130 aaatttatgttttgaaaagatcactgtggcagcaggagaaagttgggggcaagggatgta 71

                                                                       
Query: 360 tcactgtggatgccagaagcccagactgtaagcaattcctgtaatggtaggtgagattga 419
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 70  tcactgtggatgccagaagcccagactgtaagcaattcctgtaatggtaggtgagattga 11

                     
Query: 420 tggcagccat 429
           ||||||||||
Sbjct: 10  tggcagccat 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: 27
Number of extensions: 2
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: 650
Length of database: 1053
Length adjustment: 10
Effective length of query: 640
Effective length of database: 1043
Effective search space:   667520
Effective search space used:   667520
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)