BAC Information

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BAC

Clone NameMSMg01-319F02
Chromosome9 (Build37)
Map Location 119,549,994 - 119,727,956
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, LOC100040010
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-319F02.T7 (MSMg01no319_f02.b1)MSMg01-319F02.TJ (MSMg01no319_f02.g1)
ACCAG438875AG438876
length728724
length of high quality
(start - end)
373 (38 - 410)343 (70 - 412)
definitionCHROMAT_FILE: MSMg01no319_f02.b1 PHD_FILE: MSMg01no319_f02.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:01:38 2005CHROMAT_FILE: MSMg01no319_f02.g1 PHD_FILE: MSMg01no319_f02.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:01:38 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(119,727,626 - 119,727,956)(119,549,994 - 119,550,336)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCAGAGGATCCGCGGAATTC
TTCTTTTTTCCATTAGTTTTTATCTGTGTGCACGGGTGATTTGTCTGTGT
GTGTGTCTATGTACCTACCACTGTATGTGCAGTGCCCACGGAGGCTGGAA
GAGGGGGTAAGATACCCTGGACCTGGGGTTATAGATGGTTGTGAGATGTC
ATGTAGGTGCTGGCAATTGAACCCAAGTCGTCTGGAATAGCAGCCAATGT
TCTTAACCACTGAGCCATCTCTCCAGCCCTCTCAGATGTAATTCTTGCTG
GAAATTCTAGAATGACTTAAGAATGAGGAAGTCTGATTTCTGGCTCTACT
TGGCTCCTTGAAAGCCTGAGGTGTGAGCTCCCCTTGCCCCGAGAGGATTC
CCTCTTTTAAAACACCCCCCACGACCTTGCTGTGTCACCATGATCCAGCA
GAGGTTGGAAAGTCTACCTCATCAAACCAAGGCTGGGAGCCTGGGGAAAA
TTTTAGCATAATGACCGTGATGCTAAGAGCATCTTTTGCTGACACCGTGA
CCTCTCGTGACCTCTCAAAGAGTCGTTGCCTGGTTGCATGGTCTGTATGT
GTAAATACCAGAGTTTCCGAACTTATTGGAGATGGGCCATTTTAAGGAAA
TTGGTCTTATACTTGTTAGGGATTGAGTGGAATAAAAGGATCACTATTTT
ATCTTTCCTATTCTTTTTTTCCCCTTTC
ATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXACTAAGAAAATGTGCAGTTTTCTTAAGTGAG
GTAGGAGGGTTAGACATTACCATTAGAATCTCCTTATCGAGACTGGTGAT
TGCCATCATTAATCTGTAAGGTTAGAAGCGAATGGTGTATACTCTTCAAT
CTAGGACATGAATGGAGTCATCTTCTATTACTTTTTGTCTTTATAAAAGA
CAAAATAAACCACAACCAGGATCTACCCACTTGTGTTGCTGACTCTCAGC
CAGTCAGTCAGCACACATTGGGTCAGCCAGTCAGTCCGCATACATTAGGG
AGTCTGTCCACTGCTGGGGCTGAGGGGCCGCAGCCTGCTGGCTCCTGCTG
ATGCCCGAGTGACCCCCACAGGCCAGGAGTGCCCTGTGTCTGCACTCCCA
CAGCCATCACTTTTGTCCCTCAGCTAATTGTCCTCCGCAGTCTTTGTCTA
GCTTAGCATTATGACGGAAGAAACTCTTCCCACACTCATGCAATCATTTA
CAAACAATTATTTTTGGTAGGCGTTGAATATTCATCTATCGTTAATATAC
CACTTCTCTAATTAATCACTCAGAATTAATATAAACACTTCACTCTGAGG
GAAAAAGGCTTGAAAGCAGTGTTATTTATTTCCTATAACTGACGAGAAAC
CCATCTCTCTCTCCTTAACTTTCT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no319_f02.b1 MSMg01no319_f02.b1 CHROMAT_FILE:
MSMg01no319_f02.b1 PHD_FILE: MSMg01no319_f02.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:01:38 2005
         (373 letters)



>mm_chr9_119727184_119727956
          Length = 773

 Score =  584 bits (302), Expect = e-171
 Identities = 328/344 (95%), Gaps = 13/344 (3%)
 Strand = Plus / Minus

                                                                       
Query: 30  tttttatctgtgtgcacgggtgatttgtctgtgtgtgtgtctatgtacctaccactgtat 89
           ||||||||||||||||||||||||||||||||||||||||||||| |||||||| |||||
Sbjct: 773 tttttatctgtgtgcacgggtgatttgtctgtgtgtgtgtctatgcacctacca-tgtat 715

                                                                       
Query: 90  gtgcagtgcccacggaggctggaagagggggtaagataccctggacctggggttatagat 149
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 714 gtgcagtgcccacggaggctggaagagggggtaagataccctggacctggggttatagat 655

                                                                       
Query: 150 ggttgtgagatgtcatgtaggtgctggcaattgaacccaagtcgtctggaatagcagcca 209
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 654 ggttgtgagatgtcatgtaggtgctggcaattgaacccaagtcgtctggaatagcagcca 595

                                                                       
Query: 210 atgttcttaaccactgagccatctctccagccctctcagatgtaattcttgctggaaatt 269
           ||||||||||||||||||||            ||||||||||||||||||||||||||||
Sbjct: 594 atgttcttaaccactgagcc------------ctctcagatgtaattcttgctggaaatt 547

                                                                       
Query: 270 ctagaatgacttaagaatgaggaagtctgatttctggctctacttggctccttgaaagcc 329
           |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 546 ctagaatgacttcagaatgaggaagtctgatttctggctctacttggctccttgaaagcc 487

                                                       
Query: 330 tgaggtgtgagctccccttgccccgagaggattccctcttttaa 373
           || |||||||||||||||||||||||||||||||||||||||||
Sbjct: 486 tggggtgtgagctccccttgccccgagaggattccctcttttaa 443


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: 16
Number of extensions: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 373
Length of database: 773
Length adjustment: 9
Effective length of query: 364
Effective length of database: 764
Effective search space:   278096
Effective search space used:   278096
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= MSMg01no319_f02.g1 MSMg01no319_f02.g1 CHROMAT_FILE:
MSMg01no319_f02.g1 PHD_FILE: MSMg01no319_f02.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:01:38 2005
         (343 letters)



>mm_chr9_119549794_119550536
          Length = 743

 Score =  648 bits (335), Expect = 0.0
 Identities = 341/343 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   actaagaaaatgtgcagttttcttaagtgaggtaggagggttagacattaccattagaat 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 agcacacattgggtcagccagtcagtccgcatacattagggagtctgtccactgctgggg 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 agcacacattgggtcagccagtcagtccgcatacattagggagtctgtccactgctgggg 500

                                                      
Query: 301 ctgaggggccgcagcctgctggctcctgctgatgcccgagtga 343
           |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 ctgaggggccgcagcctgctggctcctgctgatgcccgagtga 543


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: 17
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: 343
Length of database: 743
Length adjustment: 9
Effective length of query: 334
Effective length of database: 734
Effective search space:   245156
Effective search space used:   245156
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)