BAC Information

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BAC

Clone NameMSMg01-071E07
Chromosome5 (Build37)
Map Location 13,545,276 - 13,681,226
singlet/doubletdoublet
Overlap geneSema3a
Upstream geneSema3d, 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 nameMSMg01-071E07.T7 (MSMg01no071_e07.b1)MSMg01-071E07.TJ (MSMg01no071_e07.g1)
ACCAG295093AG295094
length726722
length of high quality
(start - end)
328 (43 - 370)324 (71 - 394)
definitionCHROMAT_FILE: MSMg01no071_e07.b1 PHD_FILE: MSMg01no071_e07.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:18:36 2005CHROMAT_FILE: MSMg01no071_e07.g1 PHD_FILE: MSMg01no071_e07.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:18:37 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(13,680,903 - 13,681,226)(13,545,276 - 13,545,599)
sequence
ACAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAAT
TCAAACGAATTTAAACATGTTAAACATCTGCGGTTAGAAACGGATGGATG
ACAGAATGTCCCTCACACTGATTAATGGGCTGGTCTTATTAACCTTGTCA
CAATGAGACCAGATGGAGTCCACAGACTTCTAGGCCTTATTATTACAATT
AAAATATTTTTGATATATAACTTACACATCATATAAATTGCATAACTCAG
TACCTTTTATATATTCCCAGAACTGTGATGTTATTACTAATGTATGTCTA
GAATGTCTTAATAAAACACAAAAACATTTCTGTGCTGTGAACAGTCTACT
GTATTTTTATCTTTTGTTGTTATTGTTGTTGCCCAAACAACCTTTGTTTT
CTGATGAATAAGTGTAGTGATGGTTAGGATCAGCTTGCCTTGCCTGACTG
GGCCCAATGCGTTTAAAAAAAACTATCTACTCAACCAGAATACATCAAAG
GAAACTTGACACATTCCAGGGGTGCAGGGGTTTCTTCCTCCTACTTGAGG
ATTTTTACTTCTTTGACAAAAGTTCTTTCACTTTTGGTAAACACGAATAA
TGTTCCTACAACTATCCTCCAATTCAATATAAGGTAGGGTGTTTTTTCAT
GATCTGCCTTTTGGAATTTACAATTTTTCACCTTATGGGGCTTGTTGGTG
AGTGATTTCATTGGATTAATAAATAA
TGAAGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXCCCTATTCTGGGGTATAGAACCTTCACAGG
ACCATTTGACAAGTAATTGTCCATTGATTCTGTGGTCCACACAGATTCGG
TTTGGCTAGGAACTGTCTTATTTAAGGTCTAGCTCTACAAGTGAAATTTT
GAGTCTCCTAAGCCAAGTCTTGTCATAGCAATATTATGCATGTCAGTATG
GATAATAATGCCCACATAGTCTTGCCTAACTTCTAAGTTAGTTTAATATG
GCCCTTCTTTATGGATAACAAAAATACCCCTTATTTCATACTAGCATTTA
CTAGGTAATGTTTCTTAGCTCTGGTAGGCTGTTTCATCATTGTAACATTC
CTGTATTTTCACTTTATGGATTAGATTTCTAGATAGACACCATGGTATGC
CCACTGTGAAAAAGAGAGATTAACGCCATGAAGTTTTATCATCAAGGACT
AAGTGAAAGCAGGCTCTTGCCAACTGTCTGTAGAGTTCCTATGGTATCGT
AAGATTATATCCTTCGAAAAAATTTTGGTACATTCTTATATACTGGGTGG
CTCCCTGGGAATAATCTGTGGGGATACTGCCATGGGCACTTGACTGTAAA
GGTGGTATTCAAAAAGAACAAAAAATAGGGGGATATAATGGGGGGAAAAA
AAGGGCGACGACAAAGTTGAAG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no071_e07.b1 MSMg01no071_e07.b1 CHROMAT_FILE:
MSMg01no071_e07.b1 PHD_FILE: MSMg01no071_e07.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:18:36 2005
         (328 letters)



>mm_chr5_13680699_13681426
          Length = 728

 Score =  603 bits (312), Expect = e-177
 Identities = 321/324 (99%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcaaacgaatttaaacatgttaaacatctgcggttagaaacggatggatgacagaa 64
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 528 gaattcaaacgaatttaaatatgttaaacatctgcggttagaaacggatggatgacagaa 469

                                                                       
Query: 65  tgtccctcacactgattaatgggctggtcttattaaccttgtcacaatgagaccagatgg 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 468 tgtccctcacactgattaatgggctggtcttattaaccttgtcacaatgagaccagatgg 409

                                                                       
Query: 125 agtccacagacttctaggccttattattacaattaaaatatttttgatatataacttaca 184
           | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 408 actccacagacttctaggccttattattacaattaaaatatttttgatatataacttaca 349

                                                                       
Query: 185 catcatataaattgcataactcagtaccttttatatattcccagaactgtgatgttatta 244
           |||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct: 348 catcatataaattgcataactcagtaccttttatatattcccagaactgtgacgttatta 289

                                                                       
Query: 245 ctaatgtatgtctagaatgtcttaataaaacacaaaaacatttctgtgctgtgaacagtc 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 288 ctaatgtatgtctagaatgtcttaataaaacacaaaaacatttctgtgctgtgaacagtc 229

                                   
Query: 305 tactgtatttttatcttttgttgt 328
           ||||||||||||||||||||||||
Sbjct: 228 tactgtatttttatcttttgttgt 205


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: 13
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: 328
Length of database: 728
Length adjustment: 9
Effective length of query: 319
Effective length of database: 719
Effective search space:   229361
Effective search space used:   229361
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= MSMg01no071_e07.g1 MSMg01no071_e07.g1 CHROMAT_FILE:
MSMg01no071_e07.g1 PHD_FILE: MSMg01no071_e07.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:18:37 2005
         (324 letters)



>mm_chr5_13545076_13545799
          Length = 724

 Score =  557 bits (288), Expect = e-163
 Identities = 315/324 (97%)
 Strand = Plus / Plus

                                                                       
Query: 1   ccctattctggggtatagaaccttcacaggaccatttgacaagtaattgtccattgattc 60
           |||||| |||||| ||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 ccctatactggggcatagagccttcacaggaccatttgacaagtaattgtccattgattc 260

                                                                       
Query: 61  tgtggtccacacagattcggtttggctaggaactgtcttatttaaggtctagctctacaa 120
           |||||||||||||||||||||||||||||||||||| ||||||||||| |||||||||||
Sbjct: 261 tgtggtccacacagattcggtttggctaggaactgttttatttaaggtgtagctctacaa 320

                                                                       
Query: 121 gtgaaattttgagtctcctaagccaagtcttgtcatagcaatattatgcatgtcagtatg 180
           |||||| |||||||||||||||||||||||||||||| ||||||||||||||||||||||
Sbjct: 321 gtgaaaatttgagtctcctaagccaagtcttgtcatatcaatattatgcatgtcagtatg 380

                                                                       
Query: 181 gataataatgcccacatagtcttgcctaacttctaagttagtttaatatggcccttcttt 240
           |||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct: 381 gataataatgcccacatagtcttgcctaacttctaagttagtttaatatgacccttcttt 440

                                                                       
Query: 241 atggataacaaaaataccccttatttcatactagcatttactaggtaatgtttcttagct 300
           |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct: 441 atggataacaaaaataccccttattttatactagcatttactaggtaatgtttcttagct 500

                                   
Query: 301 ctggtaggctgtttcatcattgta 324
           ||||||||||||||||||||||||
Sbjct: 501 ctggtaggctgtttcatcattgta 524


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: 324
Length of database: 724
Length adjustment: 9
Effective length of query: 315
Effective length of database: 715
Effective search space:   225225
Effective search space used:   225225
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)