BAC Information

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BAC

Clone NameMSMg01-172F03
Chromosome5 (Build37)
Map Location 68,059,106 - 68,228,089
singlet/doubletdoublet
Overlap geneAtp8a1
Upstream geneUchl1, LOC100041876, 3732412D22Rik, LOC624662, Phox2b, Tmem33, Slc30a9, EG666938, C330024D21Rik, D830007B15Rik, LOC100042458
Downstream geneEG330097, EG666977, AY616753
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-172F03.T7 (MSMg01no172_f03.b1)MSMg01-172F03.TJ (MSMg01no172_f03.g1)
ACCAG368271AG368272
length790712
length of high quality
(start - end)
315 (48 - 362)286 (77 - 362)
definitionCHROMAT_FILE: MSMg01no172_f03.b1 PHD_FILE: MSMg01no172_f03.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:42:45 2005CHROMAT_FILE: MSMg01no172_f03.g1 PHD_FILE: MSMg01no172_f03.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:42:46 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(68,227,778 - 68,228,089)(68,059,106 - 68,059,389)
sequence
TCTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGC
GGAATTCCAACATCATACATACACTTGCAGAAACTGGCCACAGCTGGCAA
AATCACACTGCGGCCAGATCACGAGGCAAATCATAGTCAGCTGCTATGGA
TGATCTGAAGCAGCCCCGGATCCCACACATGGGATTAAAACAAAAATATA
TTCCCATGACTTTTCTATACTTTTAAAGAAGCCAAAGTTCTAACCCAGAA
ACACGAGGTCTGTATGTGCTCTCTCATGTGTGGATCTCAGCTATACTGAA
ATCATATGTATACATGCGAGCAAATTAAGCTTTAGAGAGGCGACTGGAGA
GGGTAATCATTGTTGATGACCCCCACCGCCGGTGGTGTTTTNTTTTTTTN
CTCTTTCCCCCTCTCCCCCCCAAATAAAAAAAAAAAATCTCCTTGGACGC
CGGGCTATCTTTTTTCCTATCTCTCCCCTTTATCCCCCCTTTTTCCCCTC
CTCCCTTTTTTTCCCTTTCCTCATTATCTACATCTCCTTTTTCCTTCTCC
TTTTCTCCCACTTCACCTATTTCTTCTTCCCGCCCACCCTTTTTTTTTCC
TCTTTTTCTCTTCTCCCTTCCCCCTTTCTTCTTTATTACTTCCATTTTTT
TCTCCTTTCACCCGTTATTCTTCTCCCCCTCCCCTCTCTTTATTCCATTC
TCTCCCCCTCCCCTTCCTTCTTTCCTCGCCGCCTCCTCTCTTATTTTCTC
TTCCTCCCCTTATTTATCACTCTCTCTCTCCCCCTTATAC
CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXAAAACAAGAAGATAACAAACATCC
TGGAAGCAAATGGGTAGGTGACATCCAGGAGACATGTTTAAGTACCAGCA
GGTGTCATCAGAAATTCATTGCAAAGAAGACGGCATAGGAAGCTGTTGAG
GGGGTTATGAGTGCAGTGGCCAGTGGTTAAGAGCTGTATTGCCCTTGGAG
ACCTGGATTCAGTGCTTAGCATCTATGTCAGGTGGCTTACAACCATCTAT
AACTCCAGCTCCAGGAGACCCCACACCCTCTTCTGGCCCCTGTGGGTATC
TGCCACTCACATGTTTATACTCTCCCCCCCACACAAAATAAAAAAGCAAA
GTACATCTAAAACAAACCACCAACCCAAGACCAGAAAACAGTCCAAACAC
TACCCAGGTTTTAGTCAGTGCCTTGAAAACATTCTGAGCTTCTGAGAGCT
GGTCATATGTAATGCGCTAGATGATTAAAACATCTTAAAGCTACTGAAAT
TAATAGTGGGGAGCTGGGTAGACTTTCAGCCTGTTCTCAGACATCATTGT
GAATCTCATAAAAAAAAAAAGTAAATATCCACTGCTAGAACATAGTCCAC
ACGCTTCGTTTTCTTCCAGAGGCACAGATGAATGTGCGCGCCGAAATCAG
ATCGTTTTTTCT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no172_f03.b1 MSMg01no172_f03.b1 CHROMAT_FILE:
MSMg01no172_f03.b1 PHD_FILE: MSMg01no172_f03.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:42:45 2005
         (315 letters)



>mm_chr5_68227382_68228096
          Length = 715

 Score =  588 bits (304), Expect = e-172
 Identities = 310/312 (99%), Gaps = 1/312 (0%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcc-aacatcatacatacacttgcagaaactggccacagctggcaaaatcacactg 63
           ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 708 gaattccaaacatcatacatacacttgcagaaactggccacagctggcaaaatcacactg 649

                                                                       
Query: 64  cggccagatcacgaggcaaatcatagtcagctgctatggatgatctgaagcagccccgga 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 648 cggccagatcacgaggcaaatcatagtcagctgctatggatgatctgaagcagccccgga 589

                                                                       
Query: 124 tcccacacatgggattaaaacaaaaatatattcccatgacttttctatacttttaaagaa 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 588 tcccacacatgggattaaaacaaaaatatattcccatgacttttctatacttttaaagaa 529

                                                                       
Query: 184 gccaaagttctaacccagaaacacgaggtctgtatgtgctctctcatgtgtggatctcag 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 528 gccaaagttctaacccagaaacacgaggtctgtatgtgctctctcatgtgtggatctcag 469

                                                                       
Query: 244 ctatactgaaatcatatgtatacatgcgagcaaattaagctttagagaggcgactggaga 303
           ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct: 468 ctatactgaaatcatatgtatacatacgagcaaattaagctttagagaggcgactggaga 409

                       
Query: 304 gggtaatcattg 315
           ||||||||||||
Sbjct: 408 gggtaatcattg 397


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: 315
Length of database: 715
Length adjustment: 9
Effective length of query: 306
Effective length of database: 706
Effective search space:   216036
Effective search space used:   216036
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= MSMg01no172_f03.g1 MSMg01no172_f03.g1 CHROMAT_FILE:
MSMg01no172_f03.g1 PHD_FILE: MSMg01no172_f03.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:42:46 2005
         (286 letters)



>mm_chr5_68058906_68059591
          Length = 686

 Score =  495 bits (256), Expect = e-144
 Identities = 278/286 (97%), Gaps = 2/286 (0%)
 Strand = Plus / Plus

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

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

                                                                       
Query: 121 tgagggggttatgagtgcagtggccagtggttaagagctgtattgcccttggagacctgg 180
           |||||||| ||  || ||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 321 tgagggggcta--agagcagtggccagtggttaagagctgtattgcccttggatacctgg 378

                                                                       
Query: 181 attcagtgcttagcatctatgtcaggtggcttacaaccatctataactccagctccagga 240
            |||||||||||||| |||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 379 tttcagtgcttagcacctatgtcaggtggcttacaaccgtctataactccagctccagga 438

                                                         
Query: 241 gaccccacaccctcttctggcccctgtgggtatctgccactcacat 286
           ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 439 gaccccacaccctcttctggcccctgtgggtatctgccactcacat 484


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: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 286
Length of database: 686
Length adjustment: 9
Effective length of query: 277
Effective length of database: 677
Effective search space:   187529
Effective search space used:   187529
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)