BAC Information

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BAC

Clone NameMSMg01-209J12
Chromosome5 (Build37)
Map Location 121,875,853 - 121,945,323
singlet/doubletdoublet
Overlap geneC330023M02Rik, Erp29, Tmem116
Upstream geneLhx5, Sdsl, Sds, 1300012G16Rik, Slc24a6, Tpcn1, Iqcd, 1110008J03Rik, Ddx54, LOC546886, Rasal1, Dtx1, Oas2, Oas3, Oas1e, Oas1c, Oas1b, Oas1f, Oas1h, Oas1g, Oas1a, Oas1d, Oas1i, Rph3a, LOC665299, Ptpn11, Rpl6, LOC100039686, EG545802, AU042671, Trafd1
Downstream geneAdam1b, Adam1a, Mapkapk5, Aldh2, 9330129D05Rik, Acad10, Brap, Atxn2, Sh2b3, A230106M15Rik, Cutl2, LOC100042693, Myl2, Ccdc63, Ppp1cc, Hvcn1, Tect1, Pptc7, Rad9b, Vps29, 1500011H22Rik, Atpbd1c, Arpc3, Anapc7, Atp2a2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-209J12.T7 (MSMg01no209_j12.b1)MSMg01-209J12.TJ (MSMg01no209_j12.g1)
ACCAG392062AG392063
length714752
length of high quality
(start - end)
313 (45 - 357)284 (76 - 359)
definitionCHROMAT_FILE: MSMg01no209_j12.b1 PHD_FILE: MSMg01no209_j12.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:33:46 2005CHROMAT_FILE: MSMg01no209_j12.g1 PHD_FILE: MSMg01no209_j12.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:33:46 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(121,875,853 - 121,876,163)(121,945,040 - 121,945,323)
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCCCTCTTTTGATCCCAAGTCTGTATCTAAAATTTTTATGCATCCAAA
CTCATTCATGATTCATTGTTGTTAGGAAATTCCGTGCTCTTAAAGCTGAG
TGGATAATGTGTTTTGATTCCAGGTGAGGAGACTGCGGTCTGGCAGGCCC
TGACTCTGCTGGAAGAAGGCTTAACCCACAGCCCATCCAATGCTCAGTTC
AAATTGCTACTTGTTCGGATCTACTGCGTGCTGGGTGCATTTGAACCAGT
GGTGGATCTCTACTCCAGTCTCTATGCTAAGCACATCCAGCACGACACCA
TTGGGTTGGTATTATACCCCNTGACTANCCAGCAGGCAGCTGCATGGAGC
CTAGGAAGGCATTGCCCCCGCAAAATACACTCTGAGAACCGAGCAGGTAG
TTTCGTCGAGTCTATGAAGGTCACTCGTGTAGACTGTAGCAGCGCAGGGC
TCCTAACATTATTCAGAGCGCAAGGGTTTGTATCTCCGACTGCTTTAATT
ATAACGCTCAGTTGCTTTCCCCATTATATAGTGCCGGCCATTGTTTGAGG
CATGCTTGTGCTCCTCTGTCGTGTGCACCCCTCATACTATCCTTTGTGTA
CCATTGTCACTGCACCATGACTTCATTTTGAGTTTGAGTCCGCCCTATGC
AATTCATTTCTTCT
CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXACCCAGAATTGCTACTGACCCTGAG
CCCACATTTCCTTTCAGCTCTCCAGTCTCGGGTTTGGCCAGAGGAGAGTC
CACTCATGTGAAACATTCACTCCCTGACATTCCCATTCTAGGGTCTCAAA
GAACGGTGGAGGAGCTGGAAGCAAGGGCAAGAGGAGACTCCAGTAGGTTT
GGGCTTCTACTATAAATTCTCTTCTGTGAGCACAGCAGTGGGGTCTGCGT
GTCTGCGTCACGGTGAGGCTCATTCTTTATCTGCTGGAACTTGCACTGTG
TCCAGCCATATTTGTTTCTCCCTGAGCANNCCTGGGATGCTGCTGTGAGA
GCCTAGAGGAGATGGAGACCGCCAGCCCAACCTTCAGTCTTGTTAAGTCC
AGGAACAGTTAGGTCCCTTAGCCCTTATTTATAAAGCATGGTTACACATC
GTGTGTGTGTGTGTGTGCGCGCGTGTGTGTGTTTGCCCCTTTTCTCTCCC
CTTTCCCCTTCCCCCCTCCTATTTTTTTTTTTTTCCCTTTTCTTCCATCC
CTCTCCTAATACCTTTTCCCTTTTATTTTCTCCCTTCCCCCTTACCTTTT
TTCTCCCCCCCCTCCTTTTTTTTTTCTCTCCGCCTCTCTTTTATCCCCTT
CATTTTCTTACCTCTTTTCTTTTTTATCTCCCTACCCCCCCTTCTTTTCT
TT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no209_j12.b1 MSMg01no209_j12.b1 CHROMAT_FILE:
MSMg01no209_j12.b1 PHD_FILE: MSMg01no209_j12.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:33:46 2005
         (313 letters)



>mm_chr5_121875651_121876363
          Length = 713

 Score =  594 bits (307), Expect = e-174
 Identities = 310/311 (99%)
 Strand = Plus / Plus

                                                                       
Query: 3   cggaattccctcttttgatcccaagtctgtatctaaaatttttatgcatccaaactcatt 62
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 203 cggaattccctcttttgatcccaagtctgtatctaaaatttttatgcatccaaactcatt 262

                                                                       
Query: 63  catgattcattgttgttaggaaattccgtgctcttaaagctgagtggataatgtgttttg 122
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 263 catgattcattgttgttaggaaattccgtgctcttaaagctgagtggataatgtgttttg 322

                                                                       
Query: 123 attccaggtgaggagactgcggtctggcaggccctgactctgctggaagaaggcttaacc 182
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 323 attccaggtgaggagactgcggtctggcaggccctgactctgctggaagaaggcttaacc 382

                                                                       
Query: 183 cacagcccatccaatgctcagttcaaattgctacttgttcggatctactgcgtgctgggt 242
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 383 cacagcccatccaatgctcagttcaaattgctacttgttcggatctactgcgtgctgggt 442

                                                                       
Query: 243 gcatttgaaccagtggtggatctctactccagtctctatgctaagcacatccagcacgac 302
           |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 443 gcatttgaaccagtggtggatctctactccagtctcgatgctaagcacatccagcacgac 502

                      
Query: 303 accattgggtt 313
           |||||||||||
Sbjct: 503 accattgggtt 513


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: 15
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: 313
Length of database: 713
Length adjustment: 9
Effective length of query: 304
Effective length of database: 704
Effective search space:   214016
Effective search space used:   214016
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= MSMg01no209_j12.g1 MSMg01no209_j12.g1 CHROMAT_FILE:
MSMg01no209_j12.g1 PHD_FILE: MSMg01no209_j12.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:33:46 2005
         (284 letters)



>mm_chr5_121944840_121945523
          Length = 684

 Score =  534 bits (276), Expect = e-156
 Identities = 282/284 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   acccagaattgctactgaccctgagcccacatttcctttcagctctccagtctcgggttt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 484 acccagaattgctactgaccctgagcccacatttcctttcagctctccagtctcgggttt 425

                                                                       
Query: 61  ggccagaggagagtccactcatgtgaaacattcactccctgacattcccattctagggtc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 424 ggccagaggagagtccactcatgtgaaacattcactccctgacattcccattctagggtc 365

                                                                       
Query: 121 tcaaagaacggtggaggagctggaagcaagggcaagaggagactccagtaggtttgggct 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 364 tcaaagaacggtggaggagctggaagcaagggcaagaggagactccagtaggtttgggct 305

                                                                       
Query: 181 tctactataaattctcttctgtgagcacagcagtggggtctgcgtgtctgcgtcacggtg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 304 tctactataaattctcttctgtgagcacagcagtggggtctgcgtgtctgcgtcacggtg 245

                                                       
Query: 241 aggctcattctttatctgctggaacttgcactgtgtccagccat 284
           |||||||  |||||||||||||||||||||||||||||||||||
Sbjct: 244 aggctcacgctttatctgctggaacttgcactgtgtccagccat 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: 2
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: 284
Length of database: 684
Length adjustment: 9
Effective length of query: 275
Effective length of database: 675
Effective search space:   185625
Effective search space used:   185625
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)