BAC Information

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BAC

Clone NameMSMg01-476G16
Chromosome9 (Build37)
Map Location 41,546,413 - 41,686,127
singlet/doubletdoublet
Overlap gene6720432D03Rik
Upstream gene9030425E11Rik, LOC100043071, Hspa8, Bsx, 4931429I11Rik, Crtam, 2810457I06Rik, LOC628495, LOC100042464, EG667566
Downstream geneSorl1, Sc5d, Tecta, Tbcel, Grik4
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-476G16.T7 (MSMg01no476_g16.b1)MSMg01-476G16.TJ (MSMg01no476_g16.g1)
ACCAG558014AG558015
length759777
length of high quality
(start - end)
247 (71 - 317)243 (76 - 318)
definitionCHROMAT_FILE: MSMg01no476_g16.b1 PHD_FILE: MSMg01no476_g16.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:55:31 2005CHROMAT_FILE: MSMg01no476_g16.g1 PHD_FILE: MSMg01no476_g16.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:55:31 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(41,546,413 - 41,546,658)(41,685,885 - 41,686,127)
sequence
AATXXXXXXXXXXXXXXXXXXXXXXXXXXXXTCAACACCGATCCGCGGAA
TTCCACTCCTTACCAAATCAAAGGACAGGAGTCAAGGTTTAATTCTTCTA
TGCCCTCTCTAAGCATAAGTTGTCCTCATATGGCGATGTCTTCTGGAATA
TAATTCTATTCTTTTTGAACGTGGGACCTTCAGGATGTCTTTGGTCACTC
CTGGTACACAGAATAGAACTTCAGTATAGGGAAACACAGACGATCAATAT
TTCTACATGGTCTGTCACATGCTGAGCCTTAGCAAGCAACATGAACCTAA
AAGATTGGCAAAGGCTTGATCCTATGCTGGGGGAGACAGGCTTTGAGGGT
AGAAAACTCATGAATAGGAAACTGTCTGGTAGCAGAGCAGACTCTGTAAA
GGGTAGCCAGACTGTGAGACTGAGTCACAATGGTTGGCAGGTACGGTTCA
AAATATGCTTAACATACAAAGGCATGATCCAGTGGACTTTTGGAAAGCAG
GTATAGCAATGGATGAATGGAATCATAAGACCATTCCATTCTCCTCAAAA
GCTCATCTCACAGGGTCTTCTCTAGAGAAAGAAGTACTGTAATGAGTGAC
CTATTCTTTCATCTATTGGTCACAGACAATACACTCCGTCCTCTAGGCCA
TTGTTTTTTCTCCCACAATACCACGTTTGAATTTCCTCCATTATTTCTCT
CACCACTATCTTGGCCTTTATATCTCCTCCCATTGTCCCTTTCCCTATTT
ACAATTACG
CATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXCATAGAAAGGATTCAAAACGTAACA
GACACAGATTCAGTCTTCTCAAGCTTTGTGTAAAGTGCCTCCAGGACGCT
CGTTTTAGAAGGGAGGCTGGAAGTATTTAGGGATGACGCCCTGTGGAGAT
CAGGAGATGTACTCTGTGACCGAGCAGCCTCCACCGTCTCTGGGTTTGCA
GAGCATGCTCAGGGGCCCTGGGAGAGAATACGTTTTACTTAGTACTTAGT
GTCCTAATGACATCCCCGTCTTTCTTGTATTTTATATTACTTCCTTCAAA
CAACCCCAAGGTGTATGTGGCAGCCAGACTCATTACAACAGATGGGGAAT
CTGCAGCCCAGACAGTCAGAGACAGTCAGAGAGTCCTGAGCCCACATGGC
ATTTGAGGCTGGAAGGTTCTGGGCAGTAGGCCTTGCCAGTCAGAAGTCAC
TGTTCTTCCCCCTAGCTCCTCAGTACTGCCTAGGCCTTGCCCCTTTTACT
TATGTCTTTGCGCCTTTTACACCTGTTTTCCCGCTTTATCTGCATCCCCG
TTGTATGCTTTTCTTCGTCCTTTCCCTCTGTCCGCTTTCCCGCCTTTGCC
CCCTTTAGTTTTCCTGTTTTTTCTCCGCCTCTTCCTATGCCCGCCCTTTT
TTTACTCCTTCTTTCTTTTTCCCCCCTCCCCTTTTCCTTTCTTTCCTCTC
CCCCCCTTTTTTTCCCTTTCTCTCCCN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no476_g16.b1 MSMg01no476_g16.b1 CHROMAT_FILE:
MSMg01no476_g16.b1 PHD_FILE: MSMg01no476_g16.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:55:31 2005
         (247 letters)



>mm_chr9_41546213_41546859
          Length = 647

 Score =  453 bits (234), Expect = e-132
 Identities = 243/246 (98%)
 Strand = Plus / Plus

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

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

                                                                       
Query: 121 ttggtcactcctggtacacagaatagaacttcagtatagggaaacacagacgatcaatat 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| 
Sbjct: 321 ttggtcactcctggtacacagaatagaacttcagtatagggaaacacagacgatcaatag 380

                                                                       
Query: 181 ttctacatggtctgtcacatgctgagccttagcaagcaacatgaacctaaaagattggca 240
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 gcctacatggtctgtcacatgctgagccttagcaagcaacatgaacctaaaagattggca 440

                 
Query: 241 aaggct 246
           ||||||
Sbjct: 441 aaggct 446


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: 10
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: 247
Length of database: 647
Length adjustment: 9
Effective length of query: 238
Effective length of database: 638
Effective search space:   151844
Effective search space used:   151844
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= MSMg01no476_g16.g1 MSMg01no476_g16.g1 CHROMAT_FILE:
MSMg01no476_g16.g1 PHD_FILE: MSMg01no476_g16.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:55:31 2005
         (243 letters)



>mm_chr9_41685685_41686327
          Length = 643

 Score =  470 bits (243), Expect = e-137
 Identities = 243/243 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   catagaaaggattcaaaacgtaacagacacagattcagtcttctcaagctttgtgtaaag 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 443 catagaaaggattcaaaacgtaacagacacagattcagtcttctcaagctttgtgtaaag 384

                                                                       
Query: 61  tgcctccaggacgctcgttttagaagggaggctggaagtatttagggatgacgccctgtg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 383 tgcctccaggacgctcgttttagaagggaggctggaagtatttagggatgacgccctgtg 324

                                                                       
Query: 121 gagatcaggagatgtactctgtgaccgagcagcctccaccgtctctgggtttgcagagca 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 323 gagatcaggagatgtactctgtgaccgagcagcctccaccgtctctgggtttgcagagca 264

                                                                       
Query: 181 tgctcaggggccctgggagagaatacgttttacttagtacttagtgtcctaatgacatcc 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 263 tgctcaggggccctgggagagaatacgttttacttagtacttagtgtcctaatgacatcc 204

              
Query: 241 ccg 243
           |||
Sbjct: 203 ccg 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: 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: 243
Length of database: 643
Length adjustment: 9
Effective length of query: 234
Effective length of database: 634
Effective search space:   148356
Effective search space used:   148356
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)