BAC Information

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BAC

Clone NameMSMg01-271K15
Chromosome2 (Build37)
Map Location 65,555,598 - 65,701,287
singlet/doubletdoublet
Overlap geneScn2a1, A330102K23Rik
Upstream geneLOC667291, Grb14, Cobll1, LOC383705, 9330158F14Rik, Scn3a
Downstream geneGalnt3, LOC620893, Ttc21b, Scn1a, LOC100039486, LOC383706, Scn9a, Scn7a
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-271K15.T7 (MSMg01no271_k15.b1)MSMg01-271K15.TJ (MSMg01no271_k15.g1)
ACCAG411152AG411153
length729741
length of high quality
(start - end)		286 (427 - 712)290 (72 - 361)
definitionCHROMAT_FILE: MSMg01no271_k15.b1 PHD_FILE: MSMg01no271_k15.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:10:35 2005CHROMAT_FILE: MSMg01no271_k15.g1 PHD_FILE: MSMg01no271_k15.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:10:35 2005
singlet/doubletdoubletdoublet
BLAST hitpluralplural
Map location.(65,701,002 - 65,701,287)(65,555,598 - 65,555,887)
sequence
CTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCCATACCTTGCATTTTGCCTCATTCTTACAGCACTTGAGACTTTTG
AATTATCGCAGGGAGTATATCACCCAGTGGTGGAACACTTGCCATGTAGG
TACAAAGGCCTGGATCAAAATCCATCAAAAAAGAATGGAAATCTATCAGA
ATTAATCTGTTCAGTATAGAAACTGTTAAATTAATTGCTAAATATAAAAT
GTTCGATGCCTTTCTAGGCATCGAAGGTCATATCAAGACATAAAGTCATT
GTCCTGGTCTTTCTTAAGGATACAGTAGCATAGAGGGTTTGAAAAGGCAG
CAAACATATTTTTTATCACACTCTCCCACAATGCTTTGTCTGGAAATAAT
TTTTGGGTCACTAACCAGCTTTACTTCCAAACTGCGGCTATCTTCACAAG
AGTTCTTAAACTCCTACTTACTTTTTAAACTTGTTGCAAGGTCATTTTAA
AAGTTCTGCATTAATCAAGAGTTTAAACAATACAAAGCCTAAAACTTCTT
ACAAAATCTGATGGTTTCAACTCTCGACTCTTTTAATAAGGATGAAATAT
GCCCAAGTATAAAATATTAATTCTTAAATCCTGAGCAAGAAGCAAGGCAC
AAAAATTGAATTTTTGAGCTCGCAGAGATATGTGTATAATGTTACTTGGG
AATTTAAGGATGTTCCAGCGAGTTTAAAT

ACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXATTCAGAAAGCCTTTGTCAGAAAGCAGAA
AGCTCTAGATGAAATCAAACCCCTTGAAGATCTGAATAACAAGAAAGACA
GTTGTATCTCCAACCACACAACCATAGAAATAGGCAAGGACCTGAATTAC
CTCAAAGATGGAAACGGGACGACCAGTGGCATAGGCAGCAGTGTGGAGAA
GTACGTGGTAGATGAGAGTGATTACATGTCATTCATCAACAACCCCAGCC
TCACCGTGACTGTGCCCATTGCTGTGGGAGAGTCTGACTTTGAAAACTTA
AATACAGAAGATTTCAGCAGTGAATCAGATATGGAAGAAAGCAAGGAGGT
AGGAAATTTAAAACAAAAGAGATATTTGGGTATGTATTTCTGTGGCTTCA
ACACTATTAGATACATTATAGTACATATTGCTTCCCTGTAAGAAAATAAG
AAATATCTACTGTAATATTTATATAGTAAGGTGTTTGATAATATTGTTAT
TCTTGCTATGCAAATGTTATCATGACTTTAATTTTCAAATATTCACTTTC
CAAACTCATAATGTTAATATGAATTTTTCTAAGCATTTTCAAAATAAGTG
TAGATAATATATCAGTGTATACACATTCATCCTTATAGTTCACCACAACA
GTGGTTTTAGTGTGTACTAAAAGGTAACTAATTGGTGAGGA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no271_k15.b1 MSMg01no271_k15.b1 CHROMAT_FILE:
MSMg01no271_k15.b1 PHD_FILE: MSMg01no271_k15.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:10:35 2005
         (286 letters)



>mm_chr2_65700802_65701487
          Length = 686

 Score =  484 bits (250), Expect = e-141
 Identities = 277/286 (96%)
 Strand = Plus / Minus

                                                                       
Query: 1   ccaaactgcggctatcttcacaagagttcttaaactcctacttactttttaaacttgttg 60
           |||||||| ||||||||||||||||||||||||||| ||||| |||||||||||||||||
Sbjct: 486 ccaaactgtggctatcttcacaagagttcttaaacttctactcactttttaaacttgttg 427

                                                                       
Query: 61  caaggtcattttaaaagttctgcattaatcaagagtttaaacaatacaaagcctaaaact 120
           ||||||||||| ||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 426 caaggtcatttaaaaagttctgcattaatcaagaggttaaacaatacaaagcctaaaact 367

                                                                       
Query: 121 tcttacaaaatctgatggtttcaactctcgactcttttaataaggatgaaatatgcccaa 180
           |||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 366 tcttacaaaatctgatggtttcaactctcgactcttttaataaggatggaatatgcccaa 307

                                                                       
Query: 181 gtataaaatattaattcttaaatcctgagcaagaagcaaggcacaaaaattgaatttttg 240
           ||||||||||||||||||||||| ||||||||||||||||||||||| ||||||||||||
Sbjct: 306 gtataaaatattaattcttaaattctgagcaagaagcaaggcacaaatattgaatttttg 247

                                                         
Query: 241 agctcgcagagatatgtgtataatgttacttgggaatttaaggatg 286
           ||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 246 agctcgcagagatatgtgtataatgttacttgggattttaaggatg 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: 10
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: 286
Length of database: 686
Length adjustment: 9
Effective length of query: 277
Effective length of database: 677
Effective search space:   187529
Effective search space used:   187529
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= MSMg01no271_k15.g1 MSMg01no271_k15.g1 CHROMAT_FILE:
MSMg01no271_k15.g1 PHD_FILE: MSMg01no271_k15.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:10:35 2005
         (290 letters)



>mm_chr2_65555398_65556087
          Length = 690

 Score =  561 bits (290), Expect = e-164
 Identities = 290/290 (100%)
 Strand = Plus / Plus

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

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

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

                                                                       
Query: 181 tacgtggtagatgagagtgattacatgtcattcatcaacaaccccagcctcaccgtgact 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 tacgtggtagatgagagtgattacatgtcattcatcaacaaccccagcctcaccgtgact 440

                                                             
Query: 241 gtgcccattgctgtgggagagtctgactttgaaaacttaaatacagaaga 290
           ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 gtgcccattgctgtgggagagtctgactttgaaaacttaaatacagaaga 490


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: 14
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: 290
Length of database: 690
Length adjustment: 9
Effective length of query: 281
Effective length of database: 681
Effective search space:   191361
Effective search space used:   191361
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)


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