BAC Information

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BAC

Clone NameMSMg01-212J12
Chromosome5 (Build37)
Map Location 20,740,638 - 20,881,504
singlet/doubletdoublet
Overlap geneA530088I07Rik, Fgl2
Upstream geneMagi2, LOC100041850, Phtf2, LOC622367, Tmem60, Rsbn1l, Ptpn12, EG626903
Downstream geneAI847670, Fbxl13, LOC625004, LOC667253, Armc10, AB112350, Pmpcb, Dnajc2, Psmc2, Slc26a5, Reln, Dnaja1-ps
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-212J12.T7 (MSMg01no212_j12.b1)MSMg01-212J12.TJ (MSMg01no212_j12.g1)
ACCAG393890AG393891
length716717
length of high quality
(start - end)
326 (384 - 709)280 (83 - 362)
definitionCHROMAT_FILE: MSMg01no212_j12.b1 PHD_FILE: MSMg01no212_j12.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:38:24 2005CHROMAT_FILE: MSMg01no212_j12.g1 PHD_FILE: MSMg01no212_j12.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:38:24 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(20,881,179 - 20,881,504)(20,740,638 - 20,740,917)
sequence
NNCCCCTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXCGCGGAATTCATTGTCTTCTTAGATAGTGAGTGCCCAGAGAGATGAAC
ACTAGCAATTTATGGCTTGAAATTCTCGCGCCTAATCATCATCTTGGCCT
GTTTGAAGGAGGACTTGTAGCCACCTGGCTGTGCCTGGTTTATACCAGGC
CAGGTGCCCCAGAAAATCCCATTACGGACACCTTTGTATTTCTGGTGGTA
ATATTTGCCATTTAAGTTGGCAGAGAGACATGAATCAAACCACCAGCCTG
AGCTGTAATAGAGCCCACAGTTCCCAGAGGGGTACCGATCGTTGTCTCTG
TCTGGGGTTGTGATAAACCTCAGGCCATGCCTGTAGTGTCGACTGAAACG
CAAGGCATCCCCTGCCGTGCCATTGTAGTTACCGATGTGTAATCGGTATT
TGAGAAATTCATTAGCCACATAAAACTGATCATACAAGGCATAAAGTGTG
AGACCATTAAAGTCTTCAAGATCTATTCTCAAAATCATTTCCTTACTCTT
GGTCAGAAGATGAATTTTATCGTTGCCCAACCAAAATTCTCGTTCAAGGT
TTCCAAAGCCGGCTTTGTAGTCTTTCCACTCTCTGGTGAAGTTGGTGCTG
CCATCAAGGCGAGCCTGCAGCACCGTCCAGCCTCCACCCATGGTCTCCAT
GTCACAGTAGACCTCN
NNTTCTCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCAGGCCAAGCCAGGGCTT
CACTGCAGAACTCTAACAAAACAAAGCAAACCTGCTTCAGGGATGCTCAG
CCAGGAAAGCCTATTTCAGAGTCTGAAAGAGTCTAAAATGTGAAGTGTTT
GTTCTTCAGGCAATTTTGATGAGGGATGCTCAACATGGAGCAGATTAAGT
ATAATGTCTTCATTGGTCGGCAACTGACATTAGCCACAGATACTGCAGGG
GGGGAATACAGAGTTTTATATACTGATAAAGAAGGGGAGGCCATGCTAGG
TGGTCCCCTTTGTTAGTGGTTTCCCNTGCCAGGCCCCCAGCTTTGATGAG
CTTAGCCTCACATACTGTATTGACCCACTTAAATCATAGGAAAGGTCCAT
GGTTCACGTTTCAACATTGCTTAGGTAATATTGGATGCTTTCTTTAGAGA
TAACACAATTTGGATATCTGGGGTCCAGAGCTATGTGAGATGCCTTTTGG
GGAACAGCTAGGTAAGATGGCAGTGTGTGCACATTCGCCAGAACTTCATG
GTGATGGGACCTTTGCTAGACTACTGCAGCTTCTTCCCATATGTCTGATC
ATTTCCCATTCTTCTACGTCTGCCATAGTGTACTGCTTCTATTTGGGCAT
GTTATATGCTGACCTGA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no212_j12.b1 MSMg01no212_j12.b1 CHROMAT_FILE:
MSMg01no212_j12.b1 PHD_FILE: MSMg01no212_j12.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:38:24 2005
         (326 letters)



>mm_chr5_20880979_20881704
          Length = 726

 Score =  630 bits (326), Expect = 0.0
 Identities = 326/326 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   tagtgtcgactgaaacgcaaggcatcccctgccgtgccattgtagttaccgatgtgtaat 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 526 tagtgtcgactgaaacgcaaggcatcccctgccgtgccattgtagttaccgatgtgtaat 467

                                                                       
Query: 61  cggtatttgagaaattcattagccacataaaactgatcatacaaggcataaagtgtgaga 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 466 cggtatttgagaaattcattagccacataaaactgatcatacaaggcataaagtgtgaga 407

                                                                       
Query: 121 ccattaaagtcttcaagatctattctcaaaatcatttccttactcttggtcagaagatga 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 406 ccattaaagtcttcaagatctattctcaaaatcatttccttactcttggtcagaagatga 347

                                                                       
Query: 181 attttatcgttgcccaaccaaaattctcgttcaaggtttccaaagccggctttgtagtct 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 346 attttatcgttgcccaaccaaaattctcgttcaaggtttccaaagccggctttgtagtct 287

                                                                       
Query: 241 ttccactctctggtgaagttggtgctgccatcaaggcgagcctgcagcaccgtccagcct 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 286 ttccactctctggtgaagttggtgctgccatcaaggcgagcctgcagcaccgtccagcct 227

                                     
Query: 301 ccacccatggtctccatgtcacagta 326
           ||||||||||||||||||||||||||
Sbjct: 226 ccacccatggtctccatgtcacagta 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: 16
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: 326
Length of database: 726
Length adjustment: 9
Effective length of query: 317
Effective length of database: 717
Effective search space:   227289
Effective search space used:   227289
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= MSMg01no212_j12.g1 MSMg01no212_j12.g1 CHROMAT_FILE:
MSMg01no212_j12.g1 PHD_FILE: MSMg01no212_j12.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:38:24 2005
         (280 letters)



>mm_chr5_20740438_20741117
          Length = 680

 Score =  526 bits (272), Expect = e-154
 Identities = 278/280 (99%)
 Strand = Plus / Plus

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

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

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

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

                                                   
Query: 241 ctgataaagaaggggaggccatgctaggtggtcccctttg 280
           |||| ||||||||||||||| |||||||||||||||||||
Sbjct: 441 ctgagaaagaaggggaggccgtgctaggtggtcccctttg 480


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: 280
Length of database: 680
Length adjustment: 9
Effective length of query: 271
Effective length of database: 671
Effective search space:   181841
Effective search space used:   181841
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)