BAC Information

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BAC

Clone NameMSMg01-459N23
Chromosome6 (Build37)
Map Location 118,570,334 - 118,757,783
singlet/doubletdoublet
Overlap geneCacna1c
Upstream geneEG640370, EG621705, LOC100043779, Zfp637, Zfp239, 4933440N22Rik, Hnrpf, Fxyd4, LOC232338, Rasgef1a, Galnact2, Ret, 1700069P05Rik, Bms1, Zfp248, Zfp9, Ankrd26
Downstream geneDcp1b, Cacna2d4, Lrtm2, Adipor2, Wnt5b, Fbxl14, Erc1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-459N23.T7 (MSMg01no459_n23.b1)MSMg01-459N23.TJ (MSMg01no459_n23.g1)
ACCAG545362AG545363
length785759
length of high quality
(start - end)		374 (68 - 441)363 (77 - 439)
definitionCHROMAT_FILE: MSMg01no459_n23.b1 PHD_FILE: MSMg01no459_n23.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:32:57 2005CHROMAT_FILE: MSMg01no459_n23.g1 PHD_FILE: MSMg01no459_n23.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:32:57 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(118,757,410 - 118,757,783)(118,570,334 - 118,570,696)
sequence
NCCAATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCTCCATTCCACGCAGACAGGTAGCAAATAAAAGCAGCTGGTGCCC
ACGCTGTGCAGCCGGTGAACATCAGCCTGGCACAGGTGTTACCTTCACGC
CTTACACAGCCATGCTGACTAGGAACCAACATGGTCCTTTTGTGATGCTT
GCTACAGGTTTATATAGCTGGCGAGTCTCATCGCCGTTTGCTGCTTGCAA
ACACGGCCTCCCTGACATTTGTCCTTGGACACTTAAGTGATGTTTCTCGG
CAGGGCCATCAGGGTCTCATTCCTGCTGAACACCTGGGAAAATGCCCTGG
AAGTAGACCTTGTGAGGGTGCTGGGGACGTAGGTACCCAAAGGACCATGG
AGCAGGATGGCTCTTGGTCTCTTCCATGCTGGGGTGAGCGGTGTCCTTGT
TCTGGTTGCAAGTGTCTCCTTGCCTTGTTGATTTGCGTTTAGCTTGAGCT
GCGCTATTTACCTTTCCTGACTGCTCTTTTTCCTCACTCCTGCGTTCCAG
CTTTTCCTCCATCTTCCCCACTTCCTTTATTCTCCCCATCCTCCATCCCT
TTTCCCCCCTAATCTTTTCCCCGTACTTCTCTCCCTTACCATTTCTTCTC
TCTTCCCCCCTCCGTATTTCTTTACCCTCTTTTCTTTCCATACCTCACAT
TCCTCACTTTTCCTTTCTCCTTCCCCCTTCTTTCTCCCCCTCTTCCTATC
TCTTTTCCTCTGCCCCCTCCTCCCTTCCCCTCTTN

CCCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXCTTTATAATTTGGGCTTCTTTTGA
TGCTCATTTGCCCATCTGCTTATCTAATACAATCTCTTGAATAAGGATGC
CCAGGCTCCGATTTTCAACTCACAGCTGAATATTAATCTCTCTCTATTAA
TTAAGTCGAGTGGCTTAATATTCTAAGTAGACAGATTTTAACAGGTTTAT
TTCTGTGCATTATTTCTAGCTTCGCTGTATTAATGTTGAAGAAGGTTTAG
AGCTTGTTAAATTCCTCATGACCTAAATTGTGGGTACTTTTGTGGATGTT
CCTGGGTGCTAAATAAGAATATGTCTTTTTTGCCATCCATTGAGGTCAGA
TCTATGGATGACACCTCTTGTCATCCACCTCTAGTGCTCTTTAGATGCTC
TTCACCTGTGGTAAACTATGACTGGTTTTATTTTTTTTTTAAAGATCTGG
CTACTTCCGGAATGTGGAAGACCCCGCTGCTGGTCTTTAAATAATACAAA
GGGTTCTTCGATCCTACTTAGGTGGTTGTGAGGTCTCTAGTTCTCTTCGT
GCTTTCCAACTCCTTTTTTTGTTAATTACTTACCGCTTCTTTATTTCTTA
TTTATCCCCCCTTATCCCATTCTTCCCCTTTCATTACTGAATTATTTACT
CTCTTTTTTTACTTGATCCCCTCCCTCGTTTGTTTTCCCCTCTTTTCCCC
CTTTCTTTC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no459_n23.b1 MSMg01no459_n23.b1 CHROMAT_FILE:
MSMg01no459_n23.b1 PHD_FILE: MSMg01no459_n23.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:32:57 2005
         (374 letters)



>mm_chr6_118757210_118757983
          Length = 774

 Score =  685 bits (354), Expect = 0.0
 Identities = 369/374 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   cagacaggtagcaaataaaagcagctggtgcccacgctgtgcagccggtgaacatcagcc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 574 cagacaggtagcaaataaaagcagctggtgcccacgctgtgcagccggtgaacatcagcc 515

                                                                       
Query: 61  tggcacaggtgttaccttcacgccttacacagccatgctgactaggaaccaacatggtcc 120
           |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct: 514 tggcacaggtgttaccttcacgccttacacagccatgctgactaggaaccaacacggtcc 455

                                                                       
Query: 121 ttttgtgatgcttgctacaggtttatatagctggcgagtctcatcgccgtttgctgcttg 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 454 ttttgtgatgcttgctacaggtttatatagctggcgagtctcatcgccgtttgctgcttg 395

                                                                       
Query: 181 caaacacggcctccctgacatttgtccttggacacttaagtgatgtttctcggcagggcc 240
           ||||||| |||||||||||||||||||||||||| |||||||||||||||||||||||||
Sbjct: 394 caaacacagcctccctgacatttgtccttggacatttaagtgatgtttctcggcagggcc 335

                                                                       
Query: 241 atcagggtctcattcctgctgaacacctgggaaaatgccctggaagtagaccttgtgagg 300
           |||||||||||||||||||||||||| |||||||||||||| ||||||||||||||||||
Sbjct: 334 atcagggtctcattcctgctgaacacatgggaaaatgccctagaagtagaccttgtgagg 275

                                                                       
Query: 301 gtgctggggacgtaggtacccaaaggaccatggagcaggatggctcttggtctcttccat 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 274 gtgctggggacgtaggtacccaaaggaccatggagcaggatggctcttggtctcttccat 215

                         
Query: 361 gctggggtgagcgg 374
           ||||||||||||||
Sbjct: 214 gctggggtgagcgg 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: 18
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: 374
Length of database: 774
Length adjustment: 9
Effective length of query: 365
Effective length of database: 765
Effective search space:   279225
Effective search space used:   279225
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= MSMg01no459_n23.g1 MSMg01no459_n23.g1 CHROMAT_FILE:
MSMg01no459_n23.g1 PHD_FILE: MSMg01no459_n23.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:32:57 2005
         (363 letters)



>mm_chr6_118570134_118570896
          Length = 763

 Score =  702 bits (363), Expect = 0.0
 Identities = 363/363 (100%)
 Strand = Plus / Plus

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

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

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

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

                                                                       
Query: 241 catgacctaaattgtgggtacttttgtggatgttcctgggtgctaaataagaatatgtct 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 catgacctaaattgtgggtacttttgtggatgttcctgggtgctaaataagaatatgtct 500

                                                                       
Query: 301 tttttgccatccattgaggtcagatctatggatgacacctcttgtcatccacctctagtg 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 tttttgccatccattgaggtcagatctatggatgacacctcttgtcatccacctctagtg 560

              
Query: 361 ctc 363
           |||
Sbjct: 561 ctc 563


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: 363
Length of database: 763
Length adjustment: 9
Effective length of query: 354
Effective length of database: 754
Effective search space:   266916
Effective search space used:   266916
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)


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