BAC Information

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BAC

Clone NameMSMg01-117G14
Chromosome5 (Build37)
Map Location 13,476,171 - 13,615,682
singlet/doubletdoublet
Overlap geneSema3a
Upstream geneSema3d, LOC668015, LOC100042917, LOC668069, LOC433845, LOC625989, LOC670717
Downstream geneLOC208055, LOC626053, Speer3, EG626067, LOC668085, LOC384149, LOC384148, Sema3e, LOC100042957, Pclo
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-117G14.T7 (MSMg01no117_g14.b1)MSMg01-117G14.TJ (MSMg01no117_g14.g1)
ACCAG328550AG328551
length728721
length of high quality
(start - end)
585 (45 - 629)476 (71 - 546)
definitionCHROMAT_FILE: MSMg01no117_g14.b1 PHD_FILE: MSMg01no117_g14.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:23:57 2005CHROMAT_FILE: MSMg01no117_g14.g1 PHD_FILE: MSMg01no117_g14.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:23:58 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(13,476,171 - 13,476,748)(13,615,207 - 13,615,682)
sequence
TCXXXXXXXXXXXXXXXXXXXXXXXXXCTATTTCGAGAGAGAGCCGCGGA
ATTCCATTACTTTGCTATCTATTTATGCTAAAATTCTATGCATCTGCATG
GATTTTTATCACTTTTTCCTATGAAGATGGCCCCACTGCCCTCCTATAAT
TGAGCTTCCTGTTGTTAATCCGTTCTATCTTTCAAGTAAACTAAGCTTTG
CTGCTCTTAGGGTGGGCTCGTGGGGAGTGAAGGGCTACAGGCCATTGCTC
AGGCTCCCCTCCACTGAAATGGTAAATAAACCTAGCTTCCTACGTGAGCT
TTGAGATGACATACTGTGGTATTAGTATTTTTTCCCAAGAAACTCAGAGT
TTCGAACAGGTCCAAATTAAGAAGCCCAGTGATTTTGATTTGCATGAAAA
CTATAAATTATAAAATACCATTCCAGAGTAGGAGGTCAGAGGGAAGATGG
TTATGCAATTACCTGGGGAATTTGGAGCAGTCTAGACAGGCAATCTAGGA
AATTCTGGAAAAGATATTATCAGGAGAGCTTGTCTAGACTACATCAAATT
TAATTTTCAATGCTTAAGCTGCCTTCTGAGACAATCTGCTTTAAATTGAT
CTATACTATTACTTTAAATGCTACCCTTGGCTTTAACCAATTTTGCTGTT
TATGAAGTTGAGAAAAAAAGACAATGTGCACTTTTATCTGTTAGACAAAA
ATGACACTAATGGAAAGCCTTACAAAGG
CGATGCAGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXATACTATGGAAGCATTTGCATTGACTAGCA
ATAGTAGACACTGGTGCTTTTTGCTGGCAGAGAAATAGAATAGTTGTTGA
AAGCTTGGTAAATAGTGTCTGGTACATAAACAATGCACACATGGATTTTA
TTTATGATGGTTTTTAATAAGCCTGAACTTTGGATCAGCTGGAGGTAGTG
CAAAAAGCAGTAGTAGACCACCCAGCAGGAGCTGAAAATAAATCAAATAC
CTCAAATATATGGTACATATATGCGCATATGTACCTAATGTAAATTATGT
TTTTAAATGTTGGATGCATATTTTCTGAGGTATAACCATACTCAGATAGT
CTAAGGAAATTGCCTCAGATTTGTTTTTGAGGCTAAGGTTACCTATTTAC
CTTTAAATAATTCTTTTATTGGTTATTTTGGTGTTTTTATTTATAGGAAG
TATTTAAATCACTGTGCTTCATTCTATAGAAAAATATACAGTAGATTGGC
AGAAAATACTGTTAAGAAATTCTGATATCCATTCTTACATTTTTGCCAAA
ATTCAGGAAATTTAATATTGTAAAAAATACACTTTTGTTATTCTAAAAAA
TAAACAGAAATTGGCAATTGCCGATTATGTGGAGTGTCTGCTGTTGTGCT
CCCTTTAGTGCCTCTTCTTAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no117_g14.b1 MSMg01no117_g14.b1 CHROMAT_FILE:
MSMg01no117_g14.b1 PHD_FILE: MSMg01no117_g14.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:23:57 2005
         (585 letters)



>mm_chr5_13475964_13476948
          Length = 985

 Score = 1017 bits (526), Expect = 0.0
 Identities = 565/578 (97%)
 Strand = Plus / Plus

                                                                       
Query: 8   ttccattactttgctatctatttatgctaaaattctatgcatctgcatggatttttatca 67
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 208 ttccattactttggtatctatttatgctaaaattctatgcatctgcatggatttttacca 267

                                                                       
Query: 68  ctttttcctatgaagatggccccactgccctcctataattgagcttcctgttgttaatcc 127
           ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 268 ctttttcctatgaagatggccccgctgccctcctataattgagcttcctgttgttaatcc 327

                                                                       
Query: 128 gttctatctttcaagtaaactaagctttgctgctcttagggtgggctcgtggggagtgaa 187
           || |||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 328 gtgctatctttcaagtaaactaagctttgctgctcttagggtgggcttgtggggagtgaa 387

                                                                       
Query: 188 gggctacaggccattgctcaggctcccctccactgaaatggtaaataaacctagcttcct 247
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 388 gggctacaggccattgctcaggctcccctccactgaaatggtaaataaacctagcttcct 447

                                                                       
Query: 248 acgtgagctttgagatgacatactgtggtattagtattttttcccaagaaactcagagtt 307
           ||||||||||||||||||||||||| ||||  ||||||||||||||||||||||||||||
Sbjct: 448 acgtgagctttgagatgacatactgaggtacaagtattttttcccaagaaactcagagtt 507

                                                                       
Query: 308 tcgaacaggtccaaattaagaagcccagtgattttgatttgcatgaaaactataaattat 367
           |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct: 508 tcgaacaggtccaaattaagaagcccggtgattttgatttgcatgaaaactataaattat 567

                                                                       
Query: 368 aaaataccattccagagtaggaggtcagagggaagatggttatgcaattacctggggaat 427
           |||||||||||||||||||||||||||||| || |||||||||||||| |||||||||||
Sbjct: 568 aaaataccattccagagtaggaggtcagagagaggatggttatgcaatgacctggggaat 627

                                                                       
Query: 428 ttggagcagtctagacaggcaatctaggaaattctggaaaagatattatcaggagagctt 487
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 628 ttggagcagtctagacaggcaatctaggaaattctggaaaagatattatcaggagagctt 687

                                                                       
Query: 488 gtctagactacatcaaatttaattttcaatgcttaagctgccttctgagacaatctgctt 547
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 688 gtctagactacatcaaatttaattttcaatgcttaagctgccttctgagacaatctgctt 747

                                                 
Query: 548 taaattgatctatactattactttaaatgctacccttg 585
           ||||||||||||||||||||||| ||||||||||||||
Sbjct: 748 taaattgatctatactattacttaaaatgctacccttg 785


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: 29
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: 585
Length of database: 985
Length adjustment: 10
Effective length of query: 575
Effective length of database: 975
Effective search space:   560625
Effective search space used:   560625
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= MSMg01no117_g14.g1 MSMg01no117_g14.g1 CHROMAT_FILE:
MSMg01no117_g14.g1 PHD_FILE: MSMg01no117_g14.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:23:58 2005
         (476 letters)



>mm_chr5_13615007_13615882
          Length = 876

 Score =  920 bits (476), Expect = 0.0
 Identities = 476/476 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   atactatggaagcatttgcattgactagcaatagtagacactggtgctttttgctggcag 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 676 atactatggaagcatttgcattgactagcaatagtagacactggtgctttttgctggcag 617

                                                                       
Query: 61  agaaatagaatagttgttgaaagcttggtaaatagtgtctggtacataaacaatgcacac 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 616 agaaatagaatagttgttgaaagcttggtaaatagtgtctggtacataaacaatgcacac 557

                                                                       
Query: 121 atggattttatttatgatggtttttaataagcctgaactttggatcagctggaggtagtg 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 556 atggattttatttatgatggtttttaataagcctgaactttggatcagctggaggtagtg 497

                                                                       
Query: 181 caaaaagcagtagtagaccacccagcaggagctgaaaataaatcaaatacctcaaatata 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 496 caaaaagcagtagtagaccacccagcaggagctgaaaataaatcaaatacctcaaatata 437

                                                                       
Query: 241 tggtacatatatgcgcatatgtacctaatgtaaattatgtttttaaatgttggatgcata 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 436 tggtacatatatgcgcatatgtacctaatgtaaattatgtttttaaatgttggatgcata 377

                                                                       
Query: 301 ttttctgaggtataaccatactcagatagtctaaggaaattgcctcagatttgtttttga 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 376 ttttctgaggtataaccatactcagatagtctaaggaaattgcctcagatttgtttttga 317

                                                                       
Query: 361 ggctaaggttacctatttacctttaaataattcttttattggttattttggtgtttttat 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 316 ggctaaggttacctatttacctttaaataattcttttattggttattttggtgtttttat 257

                                                                   
Query: 421 ttataggaagtatttaaatcactgtgcttcattctatagaaaaatatacagtagat 476
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 256 ttataggaagtatttaaatcactgtgcttcattctatagaaaaatatacagtagat 201


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: 476
Length of database: 876
Length adjustment: 10
Effective length of query: 466
Effective length of database: 866
Effective search space:   403556
Effective search space used:   403556
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)