BAC Information

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BAC

Clone NameMSMg01-169J05
Chromosome3 (Build37)
Map Location 54,308,574 - 54,396,923
singlet/doubletdoublet
Overlap genenone
Upstream geneStoml3, Frem2, Ppia-ps3_416.1, LOC621155, Ufm1, EG666444, LOC100039937, Trpc4, Postn, LOC100039951, LOC434807
Downstream geneB020017C02Rik, D3Ertd300e, Exosc8, Alg5, Smad9, Rfxap, LOC545524, 6030405A18Rik, Ccna1, 4931419H13Rik, Spg20, A730037C10Rik, Sohlh2, Dclk1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-169J05.T7 (MSMg01no169_j05.b1)MSMg01-169J05.TJ (MSMg01no169_j05.g1)
ACCAG366406AG366407
length764736
length of high quality
(start - end)
309 (107 - 415)231 (125 - 355)
definitionCHROMAT_FILE: MSMg01no169_j05.b1 PHD_FILE: MSMg01no169_j05.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:39:18 2005CHROMAT_FILE: MSMg01no169_j05.g1 PHD_FILE: MSMg01no169_j05.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:39:18 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(54,308,574 - 54,308,878)(54,396,693 - 54,396,923)
sequence
TTTTCTTTCTTTTTTTTTTTTTCCTCTTCTAACCACCATTCTTCTCCTAT
TTTNNACTATCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXCGCGGAATTCAGTAAGGGGGGTGTCTCTTTGATCACTTGTCATTTC
CACATGTTAGAAAATCTCACATCTTCATTTCTGGTCACTTGAAATTCATC
ATATACCATAGTGCTAAAGAACCCAAACTGACCCCTCTCTCAACTGTATG
TTAATACCTTTATTGATCTTGCCAGTCCACCGCTGCCCCTCCCAGTATCT
AAGAGCACTGTGTCATTCAACTGTTCCACAGGACCAGCTCTTCCCACACT
GAGGACATGTGGCACTAACTTAATTCATTTAGGTCATTTTAGTAAAATGG
AATATATAATTACTTTTTTTATACTTCACCCTCCCTCTACGGTACTTTCA
TTGGTTAGGATTCTGCAAATTGACCAAGACTAACAAAACTTTAGCTACTA
GATAAAAATCTGTTAAATGGATGAACGGATGCATTCTTTAGCAATTCCAG
GATAGTGGCAGTTATAGATCTGTGGCGCATAACTGTCTGAATATCCAATC
AACTGCATTTGGTGAGTTCAGTTGTACCTCCTTGCAAAAGATTATCCCAT
ACTTCCCTCTTATAGGGTTGTGAATAGTCCCCCGACCTCTGATTCCCCCA
CCTCACCTACCTCTGAAAAAATGGCTACCCCTCAATAATCCCATTCGCCC
TTCATTTTATTACC
CGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXTGTCCTTACTTAAGCTGTAATGTGAA
GTCTTCAGTTTTAGTTTTTCCCTTTAAATTGATTGCAAGGGCTTAACCGA
AGAGATTGACCCCTGTGCGTTTTCTAAGGAGGTTTCAGCCTTGGCTCTGC
TGAGCGAACTGAGTTTGCTTCTTGTCAGGCAGTCTCTCCTTCCTCCTACC
TCTCACAGGCTGTCACCCCTGAGCTAGTCAAGCCTGAGCTCGTGGCTCCA
TACCTCCCTCCATGTCTTATCATTATTAAATCAAAGCACCTTTTGACTTG
AAGCATTTCTGTTATTTCCCGCCTCCCCCACCCTGAACTGTCTCCAGTGA
GAGAGGAAACTTTGTGAGAGTTAGAAAACAGATAGTCCCAAGATCTGGAT
TTAATGTGGTATCAGGGAGTTTGGGAAACAAGCCCACGATCCAAGGGGAA
GGCAGGTAGGTCTGTAACTAAGGCATGGAAAACACAGGAAGCTGGAATGA
GGTTTTTGTTTGAAACCAGCCACTCTCTATTGCAGTGCAATGACACAGGA
AGACCCTCCATTCCCTATGTTCATATATGTGTATAAGTTATTTACACTCT
CAACAGTAGGGGAGTCAGCAGTTAGGTAGGAATGACAGGGGAAACCTGAA
CAGGGGAAACCTATTGTCTGGATCTATTCATACTCG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no169_j05.b1 MSMg01no169_j05.b1 CHROMAT_FILE:
MSMg01no169_j05.b1 PHD_FILE: MSMg01no169_j05.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:39:18 2005
         (309 letters)



>mm_chr3_54308372_54309080
          Length = 709

 Score =  590 bits (305), Expect = e-173
 Identities = 305/305 (100%)
 Strand = Plus / Plus

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

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

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

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

                                                                       
Query: 243 ctgaggacatgtggcactaacttaattcatttaggtcattttagtaaaatggaatatata 302
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 443 ctgaggacatgtggcactaacttaattcatttaggtcattttagtaaaatggaatatata 502

                
Query: 303 attac 307
           |||||
Sbjct: 503 attac 507


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: 309
Length of database: 709
Length adjustment: 9
Effective length of query: 300
Effective length of database: 700
Effective search space:   210000
Effective search space used:   210000
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= MSMg01no169_j05.g1 MSMg01no169_j05.g1 CHROMAT_FILE:
MSMg01no169_j05.g1 PHD_FILE: MSMg01no169_j05.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:39:18 2005
         (231 letters)



>mm_chr3_54396493_54397123
          Length = 631

 Score =  377 bits (195), Expect = e-109
 Identities = 222/231 (96%)
 Strand = Plus / Minus

                                                                       
Query: 1   taaattgattgcaagggcttaaccgaagagattgacccctgtgcgttttctaaggaggtt 60
           ||||||||||||||||||||||||||||||||||||||| ||| ||||||||||||||||
Sbjct: 431 taaattgattgcaagggcttaaccgaagagattgacccccgtgggttttctaaggaggtt 372

                                                                       
Query: 61  tcagccttggctctgctgagcgaactgagtttgcttcttgtcaggcagtctctccttcct 120
           ||||||||||||||||||||||||||||||||||||||||||||| ||||||| ||||||
Sbjct: 371 tcagccttggctctgctgagcgaactgagtttgcttcttgtcaggaagtctctgcttcct 312

                                                                       
Query: 121 cctacctctcacaggctgtcacccctgagctagtcaagcctgagctcgtggctccatacc 180
           ||||| |||||||||||||||||||||||||||||||||||||||||| ||||||| |||
Sbjct: 311 cctacatctcacaggctgtcacccctgagctagtcaagcctgagctcgcggctccacacc 252

                                                              
Query: 181 tccctccatgtcttatcattattaaatcaaagcaccttttgacttgaagca 231
           ||||||||||||| ||| |||||||||||||||||||||||||||||||||
Sbjct: 251 tccctccatgtctcatcgttattaaatcaaagcaccttttgacttgaagca 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: 8
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: 231
Length of database: 631
Length adjustment: 9
Effective length of query: 222
Effective length of database: 622
Effective search space:   138084
Effective search space used:   138084
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)