BAC Information

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BAC

Clone NameMSMg01-399O21
Chromosome9 (Build37)
Map Location 108,410,010 - 108,595,456
singlet/doubletdoublet
Overlap geneQars, Qrich1, Impdh2, 4733401H18Rik, Dalrd3, Wdr6, 4933406E20Rik, Arih2, ENSMUSG00000074075, Slc25a20, Prkar2a
Upstream geneCacna2d2, Tmem115, Cyb561d2, Tusc4, Zmynd10, Rassf1, Tusc2, Hyal2, Hyal1, Nat6, Hyal3, Ifrd2, BY080835, Sema3b, Gnai2, Slc38a3, Gnat1, Sema3f, Rbm5, Rbm6, Mon1a, Mst1r, 4921517D21Rik, Camkv, Traip, Ube1l, D330022A01Rik, 6230427J02Rik, 1700021K14Rik, Ihpk1, Gmppb, Rnf123, Amigo3, Mst1, Apeh, Bsn, LOC100042108, Dag1, Nicn1, EG434437, Tcta, Rhoa, Gpx1, Usp4, LOC623859, 1700102P08Rik, Ccdc36, BC048562, Klhdc8b, LOC100042228, Ccdc71, Lamb2, Usp19
Downstream geneIhpk2, Nckipsd, Celsr3, Slc26a6, LOC100038959, Tmem89, Uqcrc1, Col7a1, Pfkfb4, Scotin, Trex1, 6620401K05Rik, Ccdc72, Ccdc51, EG665413, Plxnb1, E330009P21Rik, Fbxw13, Fbxw12, Fbxw14, LOC668758, EG382156, Fbxw16, Fbxw19, LOC635668, Fbxw15, EG382106, E330001B16Rik, C85627
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-399O21.T7 (MSMg01no399_o21.b1)MSMg01-399O21.TJ (MSMg01no399_o21.g1)
ACCAG499674AG499675
length710729
length of high quality
(start - end)
247 (77 - 323)167 (80 - 246)
definitionCHROMAT_FILE: MSMg01no399_o21.b1 PHD_FILE: MSMg01no399_o21.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:13:03 2005CHROMAT_FILE: MSMg01no399_o21.g1 PHD_FILE: MSMg01no399_o21.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:13:04 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(108,410,010 - 108,410,253)(108,595,290 - 108,595,456)
sequence
CCCCTCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAATACCGAGGATCCG
CGGAATTCATTTATGTAGCAAAGACAACTCCAAAGCTGTGACGTTGAAAA
ACGCGGCCGGAACTTTTGCTCTCCGACAACAGGATAGTGTCGGGTTCCTT
GGGCTGAGGGGGAAGAGGCCACGCCTGAGTCTACCTGCAGCTTTGTTGCT
AAACACTTTCCCTTTCCACGCCCATGGCAATTTTTTTAAAGTCGCAGGGA
CCCAACCCTGTCAACTGCCTAGAACCGGGAAGGCGGAAGCTAACTGCCTG
GAAAAGCCAGTCCGCTCGCTCTCTTTTTCATAAATGGCGTTGACTACCTG
GCTGGCCCCGCCCCTTTCACCGAAGAAGGTCACCATTGGTTCTCTTCAAG
GCTTCGTACTCCTATTGGTCCCCGANCAAAGGTCGCTGTTCAGATGGGGC
CCAAAGTTTCTTTTGGTTTCCGGTGTGCCTGCTATGGTTACTCCAGATTC
GTTAGCGCTGTTCATCGGTCTTGGCCTTATCGAGAACAATGCTCGCGAGA
CGCTCATGAACGAGGCTCTGAGCACTCAGCTGCGCGAGGTGTCCATCCAG
TTGCGAGCCCTTGTTCCCTGCTCTTAGTTGTTCGCTGCGCCTCACAGCCT
TGTGTTACTGTTTCCCGATTCCGATTTGTTCCGGGCGCCCTGCTCTTGCC
TTGTGCTAAT
CTTACGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTGCAAATGAAATGATCATC
CGGTTTATTCGGGGCGAGCTGCCAGGTGCTGGTGCTCTTGTCTTCGGAAA
GCAAGCAGTCTATGGTGTCTAAGGCAAAGAGGCAGAGCAGCTTCTGGCGG
GACCGACTCAAGCTCCGCGCCACCACGCGGACCAAAGAACGCGCACGCTT
CATTCAAGGCAGAATCTGACAAATCACTCTCCGCGAACGCTCGGGCTCAG
AGAACCGCGGAGCTCAACCCGGAATGTTCACTCGTTCGGCAACCCAAGCA
GCTGGTTTGGACAGTTCTCGGTTCTCGGCCCAGGGTAAGGCCGGGAGCCG
AGCCCAGTGCATTCTTTGGTCGTCCCCCCCCTCCCTCCCTGAATCCTTCC
TTCGGTGCCCACATCGCACCTCGGCCTTGCCCCGTCCGCCTACCTTCCAG
ATCGGCATCCTCCGAGCCCGAGTCACTCTTTCCGTCCCCCTCGACGACGG
TTTACTGTTTCGCACTCTCGCCCTGTGAAAGGCCCCCCTTTTATATTTAT
GTACCGCGCCTGCATTTTTGCCTATCGCACCCCCGCCCTTGTCTCGTCCC
TGTACTTCCCCCGTTTTTTTTTTCCTTTTTTTCCTTGCCCCGCCCGCCCC
TTTCCCCTTTTTTTCCCTCTCCCCCTCTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no399_o21.b1 MSMg01no399_o21.b1 CHROMAT_FILE:
MSMg01no399_o21.b1 PHD_FILE: MSMg01no399_o21.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:13:03 2005
         (247 letters)



>mm_chr9_108409807_108410453
          Length = 647

 Score =  449 bits (232), Expect = e-131
 Identities = 241/244 (98%)
 Strand = Plus / Plus

                                                                       
Query: 4   ccaaagctgtgacgttgaaaaacgcggccggaacttttgctctccgacaacaggatagtg 63
           |||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct: 204 ccaaagctgtgacgttgaaaaacgcggccggaacttttgctctccgacaagaggatagtg 263

                                                                       
Query: 64  tcgggttccttgggctgagggggaagaggccacgcctgagtctacctgcagctttgttgc 123
           ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 264 tcgggttccttgggctgaggggggagaggccacgcctgagtctacctgcagctttgttgc 323

                                                                       
Query: 124 taaacactttccctttccacgcccatggcaatttttttaaagtcgcagggacccaaccct 183
           ||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 324 taaacactttccctttccacgcccatggcaatttttttaaagtcgcacggacccaaccct 383

                                                                       
Query: 184 gtcaactgcctagaaccgggaaggcggaagctaactgcctggaaaagccagtccgctcgc 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 384 gtcaactgcctagaaccgggaaggcggaagctaactgcctggaaaagccagtccgctcgc 443

               
Query: 244 tctc 247
           ||||
Sbjct: 444 tctc 447


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: 11
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: 247
Length of database: 647
Length adjustment: 9
Effective length of query: 238
Effective length of database: 638
Effective search space:   151844
Effective search space used:   151844
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= MSMg01no399_o21.g1 MSMg01no399_o21.g1 CHROMAT_FILE:
MSMg01no399_o21.g1 PHD_FILE: MSMg01no399_o21.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:13:04 2005
         (167 letters)



>mm_chr9_108595090_108595656
          Length = 567

 Score =  300 bits (155), Expect = 3e-86
 Identities = 164/167 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   tttgcaaatgaaatgatcatccggtttattcggggcgagctgccaggtgctggtgctctt 60
           |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 367 tttgcaaatgaaatgatcatccggtttattcggggcgagctgccgggtgctggtgctctt 308

                                                                       
Query: 61  gtcttcggaaagcaagcagtctatggtgtctaaggcaaagaggcagagcagcttctggcg 120
           ||||||||||||||||||| |||||| |||||||||||||||||||||||||||||||||
Sbjct: 307 gtcttcggaaagcaagcaggctatggggtctaaggcaaagaggcagagcagcttctggcg 248

                                                          
Query: 121 ggaccgactcaagctccgcgccaccacgcggaccaaagaacgcgcac 167
           |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 247 ggaccgactcaagctccgcgccaccacgcggaccaaagaacgcgcac 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: 6
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: 167
Length of database: 567
Length adjustment: 8
Effective length of query: 159
Effective length of database: 559
Effective search space:    88881
Effective search space used:    88881
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)