BAC Information

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BAC

Clone NameMSMg01-273A11
Chromosome9 (Build37)
Map Location 119,549,994 - 119,681,926
singlet/doubletdoublet
Overlap geneScn10a, Scn11a
Upstream geneItga9, LOC100039768, Ctdspl, Vill, Plcd1, Dlec1, Acaa1b, EG546165, Slc22a14, Slc22a13, 9330176C04Rik, Oxsr1, Myd88, Acaa1a, Xylb, Acvr2b, Endogl1, Scn5a
Downstream geneLOC100039837, Wdr48, Gorasp1, Ttc21a, Axud1, Cmya1, Cx3cr1, Ccr8, Slc25a38, Rpsa, Snora62, EG546166, Mobp, LOC100039898, Myrip, LOC666044, Eif1b, LOC638068, Entpd3, Rpl14, 5830454E08Rik
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-273A11.T7 (MSMg01no273_a11.b1)MSMg01-273A11.TJ (MSMg01no273_a11.g1)
ACCAG412147AG412148
length732729
length of high quality
(start - end)
317 (42 - 358)287 (72 - 358)
definitionCHROMAT_FILE: MSMg01no273_a11.b1 PHD_FILE: MSMg01no273_a11.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:12:20 2005CHROMAT_FILE: MSMg01no273_a11.g1 PHD_FILE: MSMg01no273_a11.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:12:20 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(119,681,616 - 119,681,926)(119,549,994 - 119,550,280)
sequence
TXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATT
CAGAGAAAGAAAATAACCCAGAAAGGCTAGGAACTGCTCAAGACTTCCTG
GCTGATGCTTCTTGGAACCATCAGAGCTGAGAATCAGACCTAGTAAGTCT
CCCTCCTGGGTGCAGGGCTCTCACGGGTACATCACACATACGCCGTCTTA
CAAACTCCACTCCTATTTAAGACGGTAGCGAAGGGGCTGGGCTGGTGCTT
TGGTTGGCAGAGTACTTGATGCGCAAACATGAAGACCTGAGTTCAGATCT
CCAGCTCCCATGCCAAAAGACAGGCAAACACAGCGAGATAATCCCAGCTC
TAAGGATATTTATATCTGACCACCCTGAGGCTACCTAGCTGGGTTGGTGA
GCTCTGGTTCAGTGACACTTTGTTTCAAAACCTAAGGTGGAGAGTGATTG
AGGAAGACACTAATGTTGAAGTCAGACCTCCGCATGCTGCATATGTACAA
TGTGCATACCCACAAAGACAAGAGCATCCACATGAAGATTATAAATATCA
TGANATCAAAATAGATAGTGTAAACCTAACAGCAATCCCTAATTATATCA
AAGAGTGGTCTAAAGGCACAGTCAAGAATTACCAGTAGGCACAGGTGGTT
TGTACAGGCAAGTTTTACTAAGTTTTATTAAATTCAACATTAATCAAATT
GTTATGAAGAATAGAACAGGGAAGCTGCAAAC
ACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXACTAAGAAAATGTGCAGTTTTCTTAAGTG
AGGTAGGAGGGTTAGACACTACCATTAGAATCTCCTTATCGAGACTGGTG
ATTGCCATCATTAATCTGTAAGGTTAGAAGCGAATGGTGTATACTCTTCA
ATCTAGGACATGAATGGAGTCATCTTCTATTACTTTTTGTCTTTATAAAA
GACAAAATAAACCACAACCAGGATCTACCCACTTGTGTTGCTGACTCTCA
GCCAGTCAGTCAGCACACATTGGGTCAGCCAGTCAGTCCGCATACATTAG
GGAGTCTGTTTTCTGCTGGGCCCGACGGGCCGCAGCCTGCTGGCTCCTGC
TGATGCCCGAGTGAGCAATACAGGCCAGGAGTGCCCTGTGTCTGCACTCC
CACAGCCATCACTTTTGTCCCTCAGCTAATTGTCCTCCGCAGTCTTTGTC
TAGCTTAGCATTATGACGGAAGAAACTCTTCCCACACTCATGCAATCATT
TACAAACAATTATTTTGGTAGGCGTTGAATATTCATCTATCGTTAATATA
CCACTTCTCTAATTAATCAATCAGAATTAATATAAACACTTCACTCTGAG
GGAAACAGGCTTGAGAGCAGTGGTATTTATTCACTACAACTGACGAGAAG
CCAATCTCTCTCTCCTTAAACTTCCTTTC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no273_a11.b1 MSMg01no273_a11.b1 CHROMAT_FILE:
MSMg01no273_a11.b1 PHD_FILE: MSMg01no273_a11.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:12:20 2005
         (317 letters)



>mm_chr9_119681536_119682252
          Length = 717

 Score =  578 bits (299), Expect = e-169
 Identities = 308/311 (99%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcagagaaagaaaataacccagaaaggctaggaactgctcaagacttcctggctga 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 391 gaattcagagaaagaaaataacccagaaaggctaggaactgctcaagacttcctggctga 332

                                                                       
Query: 65  tgcttcttggaaccatcagagctgagaatcagacctagtaagtctccctcctgggtgcag 124
           |||||| ||||| |||||||||||||||||||||||||||||||||||||||||||||| 
Sbjct: 331 tgcttcctggaagcatcagagctgagaatcagacctagtaagtctccctcctgggtgcaa 272

                                                                       
Query: 125 ggctctcacgggtacatcacacatacgccgtcttacaaactccactcctatttaagacgg 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 271 ggctctcacgggtacatcacacatacgccgtcttacaaactccactcctatttaagacgg 212

                                                                       
Query: 185 tagcgaaggggctgggctggtgctttggttggcagagtacttgatgcgcaaacatgaaga 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 211 tagcgaaggggctgggctggtgctttggttggcagagtacttgatgcgcaaacatgaaga 152

                                                                       
Query: 245 cctgagttcagatctccagctcccatgccaaaagacaggcaaacacagcgagataatccc 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 151 cctgagttcagatctccagctcccatgccaaaagacaggcaaacacagcgagataatccc 92

                      
Query: 305 agctctaagga 315
           |||||||||||
Sbjct: 91  agctctaagga 81


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: 317
Length of database: 717
Length adjustment: 9
Effective length of query: 308
Effective length of database: 708
Effective search space:   218064
Effective search space used:   218064
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= MSMg01no273_a11.g1 MSMg01no273_a11.g1 CHROMAT_FILE:
MSMg01no273_a11.g1 PHD_FILE: MSMg01no273_a11.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:12:20 2005
         (287 letters)



>mm_chr9_119549794_119550480
          Length = 687

 Score =  532 bits (275), Expect = e-155
 Identities = 284/287 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   actaagaaaatgtgcagttttcttaagtgaggtaggagggttagacactaccattagaat 60
           ||||||||| ||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 201 actaagaaagtgtgcagttttcttaagtgaggtaggagggttagacattaccattagaat 260

                                                                       
Query: 61  ctccttatcgagactggtgattgccatcattaatctgtaaggttagaagcgaatggtgta 120
           |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 ctccttatcgaggctggtgattgccatcattaatctgtaaggttagaagcgaatggtgta 320

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

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

                                                          
Query: 241 agcacacattgggtcagccagtcagtccgcatacattagggagtctg 287
           |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 agcacacattgggtcagccagtcagtccgcatacattagggagtctg 487


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: 287
Length of database: 687
Length adjustment: 9
Effective length of query: 278
Effective length of database: 678
Effective search space:   188484
Effective search space used:   188484
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)