BAC Information

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BAC

Clone NameMSMg01-535C17
Chromosome2 (Build37)
Map Location 38,069,253 - 38,255,828
singlet/doubletdoublet
Overlap geneDennd1a, LOC100040947, Lhx2
Upstream geneOlfr366, Olfr367, Olfr368, Pdcl, Rc3h2, Zbtb6, Zbtb26, Rabgap1, Gpr21, 6430510M02Rik, Strbp, LOC639491
Downstream geneNek6, Psmb7, LOC674251, Nr5a1, Nr6a1, Olfml2a, LOC624652, LOC100041071, 1700123D08Rik, Rpl35, Arpc5l, Golga1, A930041I02Rik, LOC100042584, Ppp6c, Vmn2r-ps2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-535C17.T7 (MSMg01no535_c17.b1)MSMg01-535C17.TJ (MSMg01no535_c17.g1)
ACCAG602681AG602682
length750762
length of high quality
(start - end)		605 (51 - 655)629 (79 - 707)
definitionCHROMAT_FILE: MSMg01no535_c17.b1 PHD_FILE: MSMg01no535_c17.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:12:54 2005CHROMAT_FILE: MSMg01no535_c17.g1 PHD_FILE: MSMg01no535_c17.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:12:54 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(38,255,388 - 38,255,828)(38,069,253 - 38,069,881)
sequence
NNGGAACAAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
CGCGGAATTCCAGGCAGATCATCACATCTTCTCATCATTCATGCAGGTGC
TGAAGATCCAAACTCAAGTCTGCTTACTTTAGCCACTGAGCCATCTCTGC
AGTTTCCAATGCTAATTTTAATCCTCCAATATTATCTCTGTCCCATGAAT
TACTTATTTCTGTGTAAAGCTATCTTTATTCTTTGCTGCCCTTGTATTAT
CTTTGTCTGGCAGTGAACCCCAGGAATCCTCCTGTCCCCTCTTGCTCAGG
GCTGAGATTACAGATGTGCACATACAAACCTGGCTTTTTTTTACATGGAT
GCTGGAAATCCAAAGTCAGGTCCTGATGTTGGCATGGCAAACACTTTACC
AAGTAAACCATTTCAAGCTCCAACAGTTTTAAGTAAATTTAAGAAGGGTC
CTGATTACAATCTTGTTAGAAACTGTGTTTAAAAGACGACTTTTCTTTGC
TTTCTGTATCCATTTCTCCTTTGAATGAGGTAGAGTGGGCACCTTGCCCT
TCCTTCATGTCAGAACTACCTACCTGAACGAATCTCAGAGGTTGTGTTTC
TTGCTCAAGAATGCACAATCGGTACCTTCCAGGGAAATTTTAAGTACTAA
GCAGGGCTAAGGATATGGTGAAATCCAGACAGGCTCAGGAGACAGAGTGC
TCTGAATAGACACTTCTATTCAGAACACAGATGGCCAACAGTTTACAGAA


AAACCATGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXTCTAAAATAGAAGTATCTTTAA
ATGTCTCTTTTTAAATTAGATTATTAACTCAGGATGGGAGACATACTACG
GCATGGGTGTAGAAGTCATAGGACAACGTTCAGGAGTTGCTTCTCTTCTC
TAGTCTTTCCACCATTTTGGTCCCAGAGCTCAAACTCAGGTCATCAGACT
TAGGAGCAAGTGTCTTTACCCACTGAGCCATCTTGCCAGCCAAATGTCTT
CTTATTTAGCTAGCTACCTATAGGATAAGTTAGCCCATATGGAAGAATTC
AAACAGCAAGATTCAAAGACAGCAGGTATGTAACAAAGCGATTCAAAATG
GCAGATACAGAAGACAAGGTTAGACTGAAAAAGGTAAGAGGTGGCATCTT
ACCTGAATTTCAGTTGATGATGAAATCGAAGCAGGAAGATAACAGGAAAG
AGAAAAATCAGGAGCCGAGATGGGGAGACAAAGAGCCTGAAGTGACTGAT
CTAGAGCACAAGGTCAGCAACAGGACAGGGAAGAGAGGTCAGCTAAGCTG
CAAAAGGCCTTGAGTGCCATGTAAGAAGTATTACGCTGTATTATCAGGTT
TACGCAGAGGACAGCACAATTACATCTATTTCAAACACAATCTGAAAGCA
TGGTAGAAGATGTATCTAGACAAAGGAAATTAATTAAGTGGCAGCTGTTA
AAGGAAGAATAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no535_c17.b1 MSMg01no535_c17.b1 CHROMAT_FILE:
MSMg01no535_c17.b1 PHD_FILE: MSMg01no535_c17.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:12:54 2005
         (605 letters)



>mm_chr2_38254824_38255828
          Length = 1005

 Score =  845 bits (437), Expect = 0.0
 Identities = 440/441 (99%)
 Strand = Plus / Minus

                                                                        
Query: 165  taaagctatctttattctttgctgcccttgtattatctttgtctggcagtgaaccccagg 224
            ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 1005 taaagctatctttattctttgctgcccttgtattagctttgtctggcagtgaaccccagg 946

                                                                        
Query: 225  aatcctcctgtcccctcttgctcagggctgagattacagatgtgcacatacaaacctggc 284
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 945  aatcctcctgtcccctcttgctcagggctgagattacagatgtgcacatacaaacctggc 886

                                                                        
Query: 285  ttttttttacatggatgctggaaatccaaagtcaggtcctgatgttggcatggcaaacac 344
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 885  ttttttttacatggatgctggaaatccaaagtcaggtcctgatgttggcatggcaaacac 826

                                                                        
Query: 345  tttaccaagtaaaccatttcaagctccaacagttttaagtaaatttaagaagggtcctga 404
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 825  tttaccaagtaaaccatttcaagctccaacagttttaagtaaatttaagaagggtcctga 766

                                                                        
Query: 405  ttacaatcttgttagaaactgtgtttaaaagacgacttttctttgctttctgtatccatt 464
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 765  ttacaatcttgttagaaactgtgtttaaaagacgacttttctttgctttctgtatccatt 706

                                                                        
Query: 465  tctcctttgaatgaggtagagtgggcaccttgcccttccttcatgtcagaactacctacc 524
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 705  tctcctttgaatgaggtagagtgggcaccttgcccttccttcatgtcagaactacctacc 646

                                                                        
Query: 525  tgaacgaatctcagaggttgtgtttcttgctcaagaatgcacaatcggtaccttccaggg 584
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 645  tgaacgaatctcagaggttgtgtttcttgctcaagaatgcacaatcggtaccttccaggg 586

                                 
Query: 585  aaattttaagtactaagcagg 605
            |||||||||||||||||||||
Sbjct: 585  aaattttaagtactaagcagg 565


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: 21
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: 605
Length of database: 1005
Length adjustment: 10
Effective length of query: 595
Effective length of database: 995
Effective search space:   592025
Effective search space used:   592025
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= MSMg01no535_c17.g1 MSMg01no535_c17.g1 CHROMAT_FILE:
MSMg01no535_c17.g1 PHD_FILE: MSMg01no535_c17.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:12:54 2005
         (629 letters)



>mm_chr2_38069053_38070081
          Length = 1029

 Score = 1201 bits (621), Expect = 0.0
 Identities = 627/629 (99%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  agacatactacggcatgggtgtagaagtcataggacaacgttcaggagttgcttctcttc 120
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 ggacatactacggcatgggtgtagaagtcataggacaacgttcaggagttgcttctcttc 320

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

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

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

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

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

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

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

                                                                       
Query: 541 atgtaagaagtattacgctgtattatcaggtttacgcagaggacagcacaattacatcta 600
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 741 atgtaagaagtattacgctgtattatcagggttacgcagaggacagcacaattacatcta 800

                                        
Query: 601 tttcaaacacaatctgaaagcatggtaga 629
           |||||||||||||||||||||||||||||
Sbjct: 801 tttcaaacacaatctgaaagcatggtaga 829


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: 30
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: 629
Length of database: 1029
Length adjustment: 10
Effective length of query: 619
Effective length of database: 1019
Effective search space:   630761
Effective search space used:   630761
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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