BAC Information

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BAC

Clone NameMSMg01-311L20
Chromosome2 (Build37)
Map Location 38,595,790 - 38,611,482
singlet/doubletdoublet
Overlap geneNr6a1
Upstream geneDennd1a, LOC100040947, Lhx2, Nek6, Psmb7, LOC674251, Nr5a1
Downstream geneOlfml2a, LOC624652, LOC100041071, 1700123D08Rik, Rpl35, Arpc5l, Golga1, A930041I02Rik, LOC100042584, Ppp6c, Vmn2r-ps2, Ppia-ps2_560.1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-311L20.T7 (MSMg01no311_l20.b1)MSMg01-311L20.TJ (MSMg01no311_l20.g1)
ACCAG434155AG434156
length744734
length of high quality
(start - end)		321 (48 - 368)599 (77 - 675)
definitionCHROMAT_FILE: MSMg01no311_l20.b1 PHD_FILE: MSMg01no311_l20.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:52:40 2005CHROMAT_FILE: MSMg01no311_l20.g1 PHD_FILE: MSMg01no311_l20.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:52:40 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(38,611,284 - 38,611,482)(38,595,790 - 38,596,388)
sequence
CTTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGC
GGAATTCCAGTATCCATGATAGAAATACTAGTCACTATTAGACATACAAC
ACAATAGTTCTAACTTGCAGCCAAATCCATTGAATGGAGTCCCAACAGAA
ATGAGCATTGGTTTGAACAAAAGTAAAGGCCATGGAGTGGTGCTGTTTAC
TGGCTTGCTCACAGCTTACTCTTCACGGCTTGCTTCATGGCTACTTTTTT
TTTTTTTTCCATTTTTTATTAGGTATTTCGCTCATTTACATTTTCAATGC
TATACCAAAAGTCCCCCATAGCCACCCACCCCCTCTCCCCTACCCACCCA
CTCCCCTTTTATGGTTTGGGTGNCTCCCCCACCCCCCGCCTATAAAGTTT
GCGTGTCCAATGGGCCTCTCTCCCCCCCAAAAAAAAACAAAAAAATCTGG
GGGAGGGGGGGGGCANCTANATTCAAAATCTCCGCNTTACTGCTTAGTTC
ATAATGTTGTTCCACCTATAGGGTTGCAGATCCCTTTAACTTCTTTGGAA
TTTTCTCTAGCTCCTTCATTGGGGGTCATGTGATCCATGTGAGCATCCAC
TTCTATGTTTGCTAGGCCCAGTCATACTCTTGACTAAATACAGCTAAATC
AGGCCTCCTTTCCCTCTATTCTTTCTTAGCGAATCCAATGGATGTCATCT
ATTCCCAATCTCCATTTTTGCCAGTTATTCCCTCTCCTATTTCT

CCATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXTCTGAGAAAATATGATTAAGGAAA
CATGAAGGACAAAGCTGGGATACAACCGATGCGTGGTAGGGACATTTTGG
AACTGTAATGGGCCAAACAGGACAGAATTAACTCACCCATCTTCAATCAA
CATAGGTGTGCCCAATGGCTCCAGGTCTTCGGCTGACATCAGCTGATGAA
TCAGACTGTAGGACTGAGGGTCCAGGCTTCGAGCTTGTGGGGGCAAAAGT
GGTGAGTGGCCAGAATAGCTAAAAAGGTGTGGTATGTATTGATAATGTGG
AGGCACTGACATCCCCATGTACTGATCCCTGAATGCCATGAATCCATTTA
GTTCCACAGACCTACTGGAGAGAAAAACTTCACATCAGGAAAAGCCATTG
CAGGTTGAATACGTGCTCAAAGAAAATAACTTGGAGATAAGTTGTTCTCT
GGTCATGAAGTCTGTGAATCATCAAGGAATGGGAAGGAATTAAAGGTTAC
ATACATGTCTATGCTATTAAATTCCACCCACAAGACAAGGATTCTGTGTG
GGCTCACCAATGTGGCCAGCAGAATAGGACTAAGTAGTTATGGATTGGAT
GAAGTTTTTGTACTGACGTCACACCTAGCACCTTGCTAATGCTAGGCAGG
TGCTTTGCTACTGTGCTATATCCTAGCCCTCTTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no311_l20.b1 MSMg01no311_l20.b1 CHROMAT_FILE:
MSMg01no311_l20.b1 PHD_FILE: MSMg01no311_l20.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:52:40 2005
         (321 letters)



>mm_chr2_38611166_38611886
          Length = 721

 Score =  385 bits (199), Expect = e-111
 Identities = 199/199 (100%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattccagtatccatgatagaaatactagtcactattagacatacaacacaatagttct 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 317 gaattccagtatccatgatagaaatactagtcactattagacatacaacacaatagttct 258

                                                                       
Query: 65  aacttgcagccaaatccattgaatggagtcccaacagaaatgagcattggtttgaacaaa 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 257 aacttgcagccaaatccattgaatggagtcccaacagaaatgagcattggtttgaacaaa 198

                                                                       
Query: 125 agtaaaggccatggagtggtgctgtttactggcttgctcacagcttactcttcacggctt 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 197 agtaaaggccatggagtggtgctgtttactggcttgctcacagcttactcttcacggctt 138

                              
Query: 185 gcttcatggctactttttt 203
           |||||||||||||||||||
Sbjct: 137 gcttcatggctactttttt 119


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: 9
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: 321
Length of database: 721
Length adjustment: 9
Effective length of query: 312
Effective length of database: 712
Effective search space:   222144
Effective search space used:   222144
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= MSMg01no311_l20.g1 MSMg01no311_l20.g1 CHROMAT_FILE:
MSMg01no311_l20.g1 PHD_FILE: MSMg01no311_l20.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:52:40 2005
         (599 letters)



>mm_chr2_38595590_38596588
          Length = 999

 Score = 1151 bits (595), Expect = 0.0
 Identities = 598/599 (99%)
 Strand = Plus / Plus

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

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

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

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

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

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

                                                                       
Query: 361 aggaaaagccattgcaggttgaatacgtgctcaaagaaaataacttggagataagttgtt 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 aggaaaagccattgcaggttgaatacgtgctcaaagaaaataacttggagataagttgtt 620

                                                                       
Query: 421 ctctggtcatgaagtctgtgaatcatcaaggaatgggaaggaattaaaggttacatacat 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 ctctggtcatgaagtctgtgaatcatcaaggaatgggaaggaattaaaggttacatacat 680

                                                                       
Query: 481 gtctatgctattaaattccacccacaagacaaggattctgtgtgggctcaccaatgtggc 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 gtctatgctattaaattccacccacaagacaaggattctgtgtgggctcaccaatgtggc 740

                                                                      
Query: 541 cagcagaataggactaagtagttatggattggatgaagtttttgtactgacgtcacacc 599
           |||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||
Sbjct: 741 cagcagaataggactaagtagttatggattggatgaagtttttgtactgatgtcacacc 799


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: 32
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: 599
Length of database: 999
Length adjustment: 10
Effective length of query: 589
Effective length of database: 989
Effective search space:   582521
Effective search space used:   582521
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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