BAC Information

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BAC

Clone NameMSMg01-545C17
Chromosome9 (Build37)
Map Location 56,886,171 - 56,886,726
singlet/doubletsinglet
Overlap genePtpn9
Upstream geneRcn2, Pstpip1, Tspan3, C230081A13Rik, Hmg20a, LOC100039535, LOC100039549, LOC640537, Lingo1, Odf3l1, Cspg4, Sh3px3, Imp3, Snupn
Downstream gene2700012I20Rik, Sin3a, Man2c1, Neil1, Commd4, 1700041C23Rik, Trcg1, 1700017B05Rik, EG330948, Ppcdc, Scamp5, D9Wsu149, LOC620603, Rpp25, Cox5a, 2310046O06Rik, Mpi1, Scamp2, Ulk3, Cplx3, Lman1l, Csk, Cyp1a2, Cyp1a1, Edc3, Clk3, Arid3b, LOC665235, LOC677423, LOC100039509, Ubl7, Sema7a, Cyp11a1, 4930535E21Rik
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-545C17.T7 (MSMg01no545_c17.b1)MSMg01-545C17.TJ (MSMg01no545_c17.g1)
ACCAG610295AG610296
length732734
length of high quality
(start - end)		688 (43 - 730)555 (66 - 620)
definitionCHROMAT_FILE: MSMg01no545_c17.b1 PHD_FILE: MSMg01no545_c17.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:26:04 2005CHROMAT_FILE: MSMg01no545_c17.g1 PHD_FILE: MSMg01no545_c17.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:26:04 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
XXXXXXXXXXXXXXXXXXXXXXXTTTCAGAGGATGCGCGGAATTCAGCAT
ATCTCCACACTAGACACACTATTGGCTTATTCAAACATTAACAGAAAGAT
TGCATGTCAGCAAAAGGGCATCAGGACTTTGTTTCTGTGGGCTGGGGGCT
TATCTTGTTCACATAGCAACCAGTTGATGTATGACTTTACCCGGCATCAA
GGGGCAGTAGACAGAGGGGAGGTTCTGGCCAGGTGGTGTTGACCCAGACA
AGATAGCCCTGCTATGTCCTCACATTCCTCTTAAAGGTTAAGCTGTTCCC
AGGAATGTTTTAACTACAAGGCATACCCAGGTTTGTTTTTCTTTTTTCTC
AGCCCCAGGCAGCCTCTAGCTCACAAACAACCAGCAATTTCTGAGTACTT
TATATGACGTACAAGTCTTGAAATTTCATCTTTCTTTCAATTCTCAATAT
GCAGAAAGAATTGTTTTGCATATAGAAACTGCTGAACTTATTCCAGATGA
TTCAGAATTAACTTTGTTATTTTATACAGCTATAATAGGTAATTCGAAAC
AGAAATCATTTATTATAGATAATCCATATTCAATCTCATACAGGTTTGCC
AGGACCATTGCCATTAAAAAATGAGAAAATAAATCAGAATTAATAGAAAA
TATATTAGGGGCTTCAAATTTTCATAAAAGGCATCATATAAATAGTAGAG
GCCTAAAGAAAAAAAATTCTATAACCTGGTGN

GGGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXTATAGCAGGAACAGAGAAGAGTTGTTTCTTAGGAA
TTTAAACTTTTAGAACTTTGCCTCTACCCAAGTCCTAGCATAGAATCATC
TGGTTTGTTCATTATTGATGCATAGAGACTTAATGCCTATGGTTGCAGCA
TAGAGTATTTCTGCCCCTTTTGTTATAGGGTGTGTTTGTGTATATTTGTA
TCTGTATATCTGTAGAGGCCAAAATTTGATGTTGACTGTTCTCTCTAATT
GTTCTCCACCCTGTTTGTCTGTTTGCCTGCCTGTCTGCCTGCCTGCCTAT
CTGTCTTTTTAAAATAATCAAGTTTTACTTTGTTTTTATTTGAGACAATA
TCCTACTATGTAGTCTTGGCTAACCCGTAATTCACCAAAACAGGGTGCCC
TCACAGAGATCCCTCTATCTCTGCATCTCTAGTGCTGCTCTTAAAGGTGT
ACACTACCACACTTATCTATAACTTAACTGTGTTTAATTTTTTTAAATAT
ATTTTATTATATTTTATGTATGAGTGTTGCCTGAATGTGTGTCTGTGCAC
CACATGCATGCAGTGCTCAGAGTGGCAGTAGAGGGCATTGGATCCCCTGA
GACCAGAGTTACAGAAGAGTGTGAGCTGCCAGGTGGGGTCTGTTTGACTT
TGGGTTCTCTGAGAAAGCAACTAGTGTTCTTAGC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no545_c17.g1 MSMg01no545_c17.g1 CHROMAT_FILE:
MSMg01no545_c17.g1 PHD_FILE: MSMg01no545_c17.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:26:04 2005
         (555 letters)



>mm_chr9_56885971_56886925
          Length = 955

 Score = 1060 bits (548), Expect = 0.0
 Identities = 554/556 (99%), Gaps = 1/556 (0%)
 Strand = Plus / Plus

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

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

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

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

                                                                       
Query: 241 ccaccctgtttgtctgtttgcctgcctgtctgcctgcctgcctatctgtctttttaaaat 300
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 tcaccctgtttgtctgtttgcctgcctgtctgcctgcctgcctatctgtctttttaaaat 500

                                                                       
Query: 301 aatcaa-gttttactttgtttttatttgagacaatatcctactatgtagtcttggctaac 359
           |||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 aatcaaagttttactttgtttttatttgagacaatatcctactatgtagtcttggctaac 560

                                                                       
Query: 360 ccgtaattcaccaaaacagggtgccctcacagagatccctctatctctgcatctctagtg 419
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 ccgtaattcaccaaaacagggtgccctcacagagatccctctatctctgcatctctagtg 620

                                                                       
Query: 420 ctgctcttaaaggtgtacactaccacacttatctataacttaactgtgtttaattttttt 479
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 ctgctcttaaaggtgtacactaccacacttatctataacttaactgtgtttaattttttt 680

                                                                       
Query: 480 aaatatattttattatattttatgtatgagtgttgcctgaatgtgtgtctgtgcaccaca 539
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 aaatatattttattatattttatgtatgagtgttgcctgaatgtgtgtctgtgcaccaca 740

                           
Query: 540 tgcatgcagtgctcag 555
           ||||||||||||||||
Sbjct: 741 tgcatgcagtgctcag 756


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: 28
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 555
Length of database: 955
Length adjustment: 10
Effective length of query: 545
Effective length of database: 945
Effective search space:   515025
Effective search space used:   515025
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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