BAC Information

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BAC

Clone NameMSMg01-392L16
Chromosome6 (Build37)
Map Location 54,484,321 - 54,653,232
singlet/doubletdoublet
Overlap geneScrn1, Fkbp14, Plekha8, LOC100041292, 2410066E13Rik
Upstream geneCreb5, LOC384386, 1200009O22Rik, Cpvl, LOC666305, Chn2, LOC100042056, Prr15, EG640926, Wipf3
Downstream geneZnrf2, Nod1, A030007L17Rik, Gars, Crhr2, Inmt, C330043M08Rik, Aqp1, Ghrhr, Adcyap1r1, LOC100042219, Neurod6, LOC100041339
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-392L16.T7 (MSMg01no392_l16.b1)MSMg01-392L16.TJ (MSMg01no392_l16.g1)
ACCAG494195AG494196
length779783
length of high quality
(start - end)
244 (74 - 317)246 (75 - 320)
definitionCHROMAT_FILE: MSMg01no392_l16.b1 PHD_FILE: MSMg01no392_l16.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:37:21 2005CHROMAT_FILE: MSMg01no392_l16.g1 PHD_FILE: MSMg01no392_l16.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:37:21 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(54,652,990 - 54,653,232)(54,484,321 - 54,484,562)
sequence
NAATCXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCCCAGACGATCCGC
GGAATTCCTATGTACCTTGACACACACCTTTGACTGCTCGGAACCTCTCA
GCCTGCAGTGTGGTGAATGGGGTTTCTAACAGGAAATGCTCCAGGTCATG
GCCGTGGACCACAGGCTGCCAGCGTCCCAGCAAGTTTTACAGCTACTCTG
TACGAAACCTACTCTGTACGAAACCTAAAAGACCTCAGCTTCTCACATCT
CGCTAGCTACCATCAAACCAAAGTGACTTGGTTTGTATGAAGGAGGAGTG
TTTCTAATGTAAATACTTCTCATGCATCTCTGGAGAGGATGCAAGAAGCC
ATGCATGGCATCTCCCTCAAGGTTTGTTCCAGAGACAAGAGCCCCCACCT
GAGTTTCACTGACACCCCAGCACCAGTGGAGGAGAGAGCAGGTATGGCCC
ACACTCTGCTGTCACAGCCCCTTGAGCCAGTACTCTTGAAGGTGAGCTCC
CCTCGTAAGCGCCTGATTTTATTTTTAAGGCCACGCACTCCTACCTGCTG
CGCACCACACTTGCCGTGCCTCCTGGCTTCGCCCCCCCCACCCCTGAAAG
CCTCACAGCCCTCCCCCGTTTCCCCCTAAGACCCCCACTTCTCTAAACAC
AGTCCTTTTATTCTAGCCCTACTCGGAGTCCCCCAAGGTTATTTGCGCCC
CCCACCCCCTGCACCTCCTTTCACCTCCCTCACGCCCTGCACACCTTTCT
CCCTCCCTTTACCTTCCCTTCTCCTCCCN
CGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXCACGAAATAGAACTTCTTACACCAGA
AGTACAGGAAAACATTAATCCCCACTCCCACTGGCAATTGTTTCGAAGAA
TCACCATTCTGTACCTGACCAGATCCATTCCCAGTAAGGCTTCCGTCTCA
GCAGCTGGTTCTCTGGCATTGATGGCTTCGTTGGCTATGCATACCCCATG
TTCATTGGCTCCCATTTCTGCCCCCCAGAGCCAGGCAGGTCTGCTTATCA
CGATGGCGTGGGTCCTGGGGACTTGGTCAATTGAGATGTAAGTGCACTGC
AAAAGAAAACAAGCAAGACGGTGCCATCAACTGTCAGAAACCTTTCAGTT
CCCACCTTGGTACCTACGCTGGACCTTCACATTGGTTACAGAGCAGAGAG
CAAAAGACCTGAAATACAGACTCCAGACACCCCAGGGGCAGCCCAGGGCT
CCCCTGCTGAGCACCCCTGTGCTTTGTTCAAGCTGCGTTGTTCCCAGAGT
TTTCCCCCCGTGCATCCCCTCCCCCCGGCGTCGAGTTGACCCCCGTCTGG
TCCTTCCCTTCTTCACCCTCGTGTTGTCCCCCAAAACCCTCTTCCCCCCC
CGTGTACCCCTTGTCCCCAACCTGCTAGTACACTCCTTCTCCCTTCCCCC
CCATGGGTCTTTTTTCCCCCTACCCTCACTCCCCCACTTCTTTTCCCTAC
CCTCTCTCCCTTCCTTATCCTATTTCTCCCTTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no392_l16.b1 MSMg01no392_l16.b1 CHROMAT_FILE:
MSMg01no392_l16.b1 PHD_FILE: MSMg01no392_l16.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:37:21 2005
         (244 letters)



>mm_chr6_54652790_54653433
          Length = 644

 Score =  462 bits (239), Expect = e-135
 Identities = 242/243 (99%)
 Strand = Plus / Minus

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

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

                                                                       
Query: 121 tactctgtacgaaacctactctgtacgaaacctaaaagacctcagcttctcacatctcgc 180
           |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 323 tactctgtacaaaacctactctgtacgaaacctaaaagacctcagcttctcacatctcgc 264

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

              
Query: 241 tac 243
           |||
Sbjct: 203 tac 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: 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: 244
Length of database: 644
Length adjustment: 9
Effective length of query: 235
Effective length of database: 635
Effective search space:   149225
Effective search space used:   149225
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= MSMg01no392_l16.g1 MSMg01no392_l16.g1 CHROMAT_FILE:
MSMg01no392_l16.g1 PHD_FILE: MSMg01no392_l16.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:37:21 2005
         (246 letters)



>mm_chr6_54484117_54484762
          Length = 646

 Score =  453 bits (234), Expect = e-132
 Identities = 240/242 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   aaatagaacttcttacaccagaagtacaggaaaacattaatccccactcccactggcaat 64
           |||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct: 205 aaatagaacttcttacaccagaagtacaggaaaacattaatccccactcccattggcaat 264

                                                                       
Query: 65  tgtttcgaagaatcaccattctgtacctgaccagatccattcccagtaaggcttccgtct 124
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 tgtttcgaagagtcaccattctgtacctgaccagatccattcccagtaaggcttccgtct 324

                                                                       
Query: 125 cagcagctggttctctggcattgatggcttcgttggctatgcataccccatgttcattgg 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 cagcagctggttctctggcattgatggcttcgttggctatgcataccccatgttcattgg 384

                                                                       
Query: 185 ctcccatttctgccccccagagccaggcaggtctgcttatcacgatggcgtgggtcctgg 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 ctcccatttctgccccccagagccaggcaggtctgcttatcacgatggcgtgggtcctgg 444

             
Query: 245 gg 246
           ||
Sbjct: 445 gg 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: 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: 246
Length of database: 646
Length adjustment: 9
Effective length of query: 237
Effective length of database: 637
Effective search space:   150969
Effective search space used:   150969
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)