BAC Information

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BAC

Clone NameMSMg01-113F09
Chromosome1 (Build37)
Map Location 89,159,844 - 89,252,486
singlet/doubletdoublet
Overlap geneEfhd1, Tnrc15, LOC100040600
Upstream geneArmc9, B3gnt7, EG383538, Ncl, Snord82, Nmur1, 1700019O17Rik, LOC100040414, Ptma, Pde6d, Cops7b, Nppc, 4930429A22Rik, EG620213, LOC208256, Akp5, Alpi, Akp3, Ecel1, 1700027L20Rik, Chrnd, Chrng, Eif4e2
Downstream geneLOC100040591, 3110079O15Rik, Ngef, LOC620454, Neu2, Inpp5d, Atg16l1, Sag, Usp40, LOC545344, LOC677561, Ugt1a@, Ugt1a10, Ugt1a9, Ugt1a7c, Ugt1a6a, Ugt1a6b, Ugt1a5, Ugt1a2, Dnajb3, Ugt1a1, LOC100040766, 6430706D22Rik, LOC100038822, Trpm8
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-113F09.T7 (MSMg01no113_f09.b1)MSMg01-113F09.TJ (MSMg01no113_f09.g1)
ACCAG325502AG325503
length696700
length of high quality
(start - end)
280 (47 - 326)626 (71 - 696)
definitionCHROMAT_FILE: MSMg01no113_f09.b1 PHD_FILE: MSMg01no113_f09.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:18:44 2005CHROMAT_FILE: MSMg01no113_f09.g1 PHD_FILE: MSMg01no113_f09.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:18:44 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(89,159,844 - 89,160,120)(89,252,031 - 89,252,486)
sequence
AATCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCTCTTGTCTACGCCTTCTGAGTGCTGGAGTTATAGGCGTGTACCC
CAACACCCAGCTATTCGAATTCTAATCGAATTACGTTTTCATGAGAGCAC
GCAATGGCTCTGATTTTTCCCTGTGGCCCCCTAAGATGTGCAGGCAACCA
ACTCATGCCTTTCAGCGGTGCACACCACCGGGCTCATCACACACACTCCC
CAGTCTGTGGCCCAAAACAAGTGGAGCAAAGCTGGTCCCCAGTGCAGCCA
CTATTGTGTTTACAGCTGCTTCTCCATGCTTGGCTGAGGAAACCCTCATT
TGCACCACATCCTTCCTTAGGGAGAATGACGGCGGCTCTACTTGTTTTTA
CTTCAAACCCCGGTTTCAAAAGTTGCCTTATTTTCAAGCCTTTTCTAACC
CCACTCTCCGCAAGGGGGGCCTCCTTTTTTAAAAAAAAAAAAAAAAAAAA
AAGCCATACAGCCCCAGATACTTGCCCACATTTGGTCCCCTTAAAAAAGA
AACCCCCCCTTTTTTTTTCCGTACAAGAATTTCTTCTTTTCTTTTTNTTT
TTCCCCNCAGAAAAAAAATTTTTTAAAAGGGGTTGGGGAAAAAATTTTTT
CCTGGGGTATTTGGGAAAGGGTACCCTTTCCTATTGTGCAAGGAAA
ATATAGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXTTTCGTTTTGGCTAAATTTTCTGGTGCTTT
TCCACTACATATTATTATCAAGTGCTTTAAGAAGAAAACTCTTTAAAATT
ACTTAACAATTTTAATCATGGTTTTACAAAGAAAAACGTATAGGATATAT
AAATACAAAAGAAAATGATGGCAGAACAGCTGTACAAACCATGGTTTACA
AAGTGAACTATGTGCATTTAAATCCACCTGGTTAAAGGAGTTACTAAGAT
ATGAATAAAGACTGAGCTATACGAATGTTAAAATGTTTCTATAATACTAA
TAGCTGAGAACAGCCTCCACATGCTCCATCTGGAGAATTGGTTAAATGAT
AGTACATTCATACAATGAAACTATTAAATAGAACCAAAAACCATTTATTA
AGTTTTTTCTTTACTTAGTTTTTTTAAAGGTTACAAGATTTAATGCACAG
TATGATCAGATTTTGTGAAAATAAAATATACATATATACAAACAAGATAC
ATAAAACCACTTGGAAAGATATACCAAGATATGTACAGTGTGTACTAGGG
ATCAAATTACCTAATAGTATCTTTTCCTTGCTTACTTATAACTTCTGATT
TTTCTAGAAACAAAGTGATTTAATAATAAGAAAAGTATTTTTTAAATATA

quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no113_f09.b1 MSMg01no113_f09.b1 CHROMAT_FILE:
MSMg01no113_f09.b1 PHD_FILE: MSMg01no113_f09.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:18:44 2005
         (280 letters)



>mm_chr1_89159641_89160320
          Length = 680

 Score =  528 bits (273), Expect = e-154
 Identities = 276/277 (99%)
 Strand = Plus / Plus

                                                                       
Query: 4   ggaattctcttgtctacgccttctgagtgctggagttataggcgtgtaccccaacaccca 63
           |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 204 ggaattctcttgtctaagccttctgagtgctggagttataggcgtgtaccccaacaccca 263

                                                                       
Query: 64  gctattcgaattctaatcgaattacgttttcatgagagcacgcaatggctctgatttttc 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264 gctattcgaattctaatcgaattacgttttcatgagagcacgcaatggctctgatttttc 323

                                                                       
Query: 124 cctgtggccccctaagatgtgcaggcaaccaactcatgcctttcagcggtgcacaccacc 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 324 cctgtggccccctaagatgtgcaggcaaccaactcatgcctttcagcggtgcacaccacc 383

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

                                                
Query: 244 cagtgcagccactattgtgtttacagctgcttctcca 280
           |||||||||||||||||||||||||||||||||||||
Sbjct: 444 cagtgcagccactattgtgtttacagctgcttctcca 480


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: 13
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: 280
Length of database: 680
Length adjustment: 9
Effective length of query: 271
Effective length of database: 671
Effective search space:   181841
Effective search space used:   181841
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= MSMg01no113_f09.g1 MSMg01no113_f09.g1 CHROMAT_FILE:
MSMg01no113_f09.g1 PHD_FILE: MSMg01no113_f09.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:18:44 2005
         (626 letters)



>mm_chr1_89251461_89252486
          Length = 1026

 Score =  882 bits (456), Expect = 0.0
 Identities = 456/456 (100%)
 Strand = Plus / Minus

                                                                        
Query: 171  atggtttacaaagtgaactatgtgcatttaaatccacctggttaaaggagttactaagat 230
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1026 atggtttacaaagtgaactatgtgcatttaaatccacctggttaaaggagttactaagat 967

                                                                        
Query: 231  atgaataaagactgagctatacgaatgttaaaatgtttctataatactaatagctgagaa 290
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 966  atgaataaagactgagctatacgaatgttaaaatgtttctataatactaatagctgagaa 907

                                                                        
Query: 291  cagcctccacatgctccatctggagaattggttaaatgatagtacattcatacaatgaaa 350
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 906  cagcctccacatgctccatctggagaattggttaaatgatagtacattcatacaatgaaa 847

                                                                        
Query: 351  ctattaaatagaaccaaaaaccatttattaagttttttctttacttagtttttttaaagg 410
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 846  ctattaaatagaaccaaaaaccatttattaagttttttctttacttagtttttttaaagg 787

                                                                        
Query: 411  ttacaagatttaatgcacagtatgatcagattttgtgaaaataaaatatacatatataca 470
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 786  ttacaagatttaatgcacagtatgatcagattttgtgaaaataaaatatacatatataca 727

                                                                        
Query: 471  aacaagatacataaaaccacttggaaagatataccaagatatgtacagtgtgtactaggg 530
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 726  aacaagatacataaaaccacttggaaagatataccaagatatgtacagtgtgtactaggg 667

                                                                        
Query: 531  atcaaattacctaatagtatcttttccttgcttacttataacttctgatttttctagaaa 590
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 666  atcaaattacctaatagtatcttttccttgcttacttataacttctgatttttctagaaa 607

                                                
Query: 591  caaagtgatttaataataagaaaagtattttttaaa 626
            ||||||||||||||||||||||||||||||||||||
Sbjct: 606  caaagtgatttaataataagaaaagtattttttaaa 571


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: 23
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: 626
Length of database: 1026
Length adjustment: 10
Effective length of query: 616
Effective length of database: 1016
Effective search space:   625856
Effective search space used:   625856
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)