BAC Information

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BAC

Clone NameMSMg01-089D09
Chromosome18 (Build37)
Map Location 35,955,953 - 35,956,485
singlet/doubletsinglet
Overlap geneUbe2d2
Upstream geneJmjd1b, Reep2, Egr1, Etf1, Hspa9, LOC100041377, EG626954, LOC100041951, Ctnna1, Lrrtm2, Sil1, LOC100041423, LOC666460, LOC666462, EG383341, EG436583, Matr3, Paip2, Slc23a1, 2010001M09Rik, Gm1614, 5133400G04Rik, Dnajc18, 1110006O17Rik, 1700066B19Rik, 2610307O08Rik, LOC666505
Downstream geneCxxc5, LOC100042131, Psd2, LOC100042150, LOC100041531, Pura, 0610010O12Rik, Pfdn1, Hbegf, Slc4a9, LOC624979, Eif4ebp3, Sra1, Apbb3, Slc35a4, E230025N22Rik, Cd14, Tmco6, Ndufa2, Ik, Wdr55, Dnd1, Hars, Hars2, Zmat2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-089D09.T7 (MSMg01no089_d09.b1)MSMg01-089D09.TJ (MSMg01no089_d09.g1)
ACCAG307769AG307770
length710683
length of high quality
(start - end)
297 (22 - 318)521 (58 - 578)
definitionCHROMAT_FILE: MSMg01no089_d09.b1 PHD_FILE: MSMg01no089_d09.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:41:56 2005CHROMAT_FILE: MSMg01no089_d09.g1 PHD_FILE: MSMg01no089_d09.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:41:56 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
AAGATCCGCGGAATTCACCCAGAACTCTCCCCAAAAACCTGCCTTTATAA
TTTAATTTGGCTTGGCTTGGCTCATTTTATCAGCCAAGATAACTTATCAC
CTAGTGCCTACTGAGTCAGAAGTGGGGCCTCTTATTCCCGGGAACTGAAG
TTATGGGTAATTGTGAACCACTTTGTGGGTGCTGAGAATGGAATCTGGGG
CTTCTGCTAGAGCGGGGGGGGGGGTGCTCTTAAACGATGAGCTCTCTCTC
CAACTCTGTGCCTAAGGATTTTTTTTTTTGATTTTTAATTGTGTGTGTGT
TGTGTGTATATGTGTGTTTTTGTCCCCCCCCCCCCCCCCCCTAAATCCGT
CATGTTTTTCTACATGTTTCTGCTTCCCCCTAAAAAAAAAAATATGCGGG
GGTGGGGGGGCTCCTGCATTCCACTTCTCTCTTTTACCCTCATATCATTT
TACTATTTTATCATATTATCACCTTAATCAAATTTCTACCCACCCCCCCC
AATATCTCTTCCCTTATTTACTTCTCTCATATATTCCTTTAACACTTCAC
CCACCCCCTTATTTTCCATCATTTATAAGTATATCTCACCTTATCCTCGC
CCCCTCCTTTTTCTCTCCATTTTACCCTCCCATATCCCCCCTCCTCTTGA
TTTTACTCTCTACATCTCCCCTCCTTCCCTCCTTCTCTCCCTCTCCTTCT
TCTTTTCTCA
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXCAGGACAGCCAGGGCTATACTGAGAAACCCTGTCTCAAAAAAC
CAAAAATAAATAAATAAATAAATAAAAAACACTGGATATAGTGAGTGACA
CACATCTTTGGTAATACTGGGAAGACAAGTGGATCTCTGCAAATTCAAGG
ACTGTGTATAAAGAGCTATACAGTGAATGACGTGACCATCCAGTGCTATG
TAGTAGAGACCACCTCCCTCCTCCCAATTACAACTCTCTCTTCTTCCTGG
CTCCCTCTCTGTGTATGATGTTCCATTGCACAGGCCAGAAGACAGTATCA
GACAATTCTCATTTTATTACTTCTTGTCTTATTGTTTTTGTACTGGCACA
CCCAGCTTCTATCAGTGTCTTCTCTCTCAAATCATGACTTTAATCTTAAC
ACTTGATGAAAAAAGATAGGCAGACCTCTGAGTTCAAGGCCAGTCTGTTC
TACAGGAGACAAGCAGGGCTGTTACACAGAGAAACCCTGTCTCAAAAAGC
CAAAAACCAAACCAAACCAATTCACTCTCTGTGTGTAGCCTCTGCGTCTC
CATTACTGGGATTACAGGAAGGCACTACCATGCCTGTTTACTTTTGATTT
TACCTTATTTAAAAAAAAAAAAAAATAGGAGGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no089_d09.g1 MSMg01no089_d09.g1 CHROMAT_FILE:
MSMg01no089_d09.g1 PHD_FILE: MSMg01no089_d09.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:41:56 2005
         (521 letters)



>mm_chr18_35955695_35956615
          Length = 921

 Score =  965 bits (499), Expect = 0.0
 Identities = 519/533 (97%), Gaps = 12/533 (2%)
 Strand = Plus / Minus

                                                                       
Query: 1   caggacagccagggctatactgagaaaccctgtctcaaaaaaccaaaaataaataaataa 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 791 caggacagccagggctatactgagaaaccctgtctcaaaaaaccaaaaataaataaataa 732

                                                                       
Query: 61  ataaata------------aaaaacactggatatagtgagtgacacacatctttggtaat 108
           |||||||            |||||||||||||||||||||||||||||||||||||||||
Sbjct: 731 ataaataaataaataaaataaaaacactggatatagtgagtgacacacatctttggtaat 672

                                                                       
Query: 109 actgggaagacaagtggatctctgcaaattcaaggactgtgtataaagagctatacagtg 168
           |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 671 actgggaagacaagtggatctctgcaaattcaaggactctgtataaagagctatacagtg 612

                                                                       
Query: 169 aatgacgtgaccatccagtgctatgtagtagagaccacctccctcctcccaattacaact 228
           || |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 611 aacgacgtgaccatccagtgctatgtagtagagaccacctccctcctcccaattacaact 552

                                                                       
Query: 229 ctctcttcttcctggctccctctctgtgtatgatgttccattgcacaggccagaagacag 288
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 551 ctctcttcttcctggctccctctctgtgtatgatgttccattgcacaggccagaagacag 492

                                                                       
Query: 289 tatcagacaattctcattttattacttcttgtcttattgtttttgtactggcacacccag 348
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 491 tatcagacaattctcattttattacttcttgtcttattgtttttgtactggcacacccag 432

                                                                       
Query: 349 cttctatcagtgtcttctctctcaaatcatgactttaatcttaacacttgatgaaaaaag 408
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 431 cttctatcagtgtcttctctctcaaatcatgactttaatcttaacacttgatgaaaaaag 372

                                                                       
Query: 409 ataggcagacctctgagttcaaggccagtctgttctacaggagacaagcagggctgttac 468
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 371 ataggcagacctctgagttcaaggccagtctgttctacaggagacaagcagggctgttac 312

                                                                
Query: 469 acagagaaaccctgtctcaaaaagccaaaaaccaaaccaaaccaattcactct 521
           |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 311 acagagaaaccctgtctcaaaaagccaaaaaccaaaccaaaccaattcactct 259


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: 35
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: 521
Length of database: 921
Length adjustment: 10
Effective length of query: 511
Effective length of database: 911
Effective search space:   465521
Effective search space used:   465521
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)