BAC Information

Click to search

BAC

Clone NameMSMg01-080K03
Chromosome1 (Build37)
Map Location 40,571,272 - 40,734,435
singlet/doubletdoublet
Overlap geneIl18rap, Slc9a4
Upstream geneD1Bwg0212e, Rnf149, EG329126, Creg2, 4933400N17Rik, LOC100042065, Map4k4, Il1r2, Il1r1, Il1rl2, Il1rl1, Il18r1
Downstream geneSlc9a2, Mfsd9, Tmem182, Ppia-ps1_352.1, LOC100041441
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-080K03.T7 (MSMg01no080_k03.b1)MSMg01-080K03.TJ (MSMg01no080_k03.g1)
ACCAG301423AG301424
length703698
length of high quality
(start - end)
527 (60 - 586)548 (66 - 613)
definitionCHROMAT_FILE: MSMg01no080_k03.b1 PHD_FILE: MSMg01no080_k03.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:29:36 2005CHROMAT_FILE: MSMg01no080_k03.g1 PHD_FILE: MSMg01no080_k03.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:29:36 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(40,733,908 - 40,734,435)(40,571,272 - 40,571,819)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTC
CAGCAGGCTGAGTATGTCACCACTATCATTGTGATGAACGAATGGGATGC
TGATTGCTTGTGAGTGGTAGTGGCCCCCTGGTGCCACAGCAGGACGCCAG
GGCTCTCTTTACAGGATAGTCCTAGTGTAGGTCTACTAAACTAGCCCAGC
CTGAGCTAGATCTCTGGGCAGGAACCCGAGAATGACTCCACTAGACAATG
CTGGCTCCGGGTCTGCATTCCACAATACCTAAGACCAGAAGCACTGGGAT
TTAGGATTCCTCCACCATATTTGGGGACACTTGCATGAATGTAAAGTGGT
GTTTAGTATGCTTGTGCTGTCACTGCGATCCCTGACATTGGGTCAGTTTT
CCACTTGTACACTCTTGTCAGCATTCAAAACACTACAGCTTTTGTAGGGC
TTTGTTACAGATTTTAAAGTAGACATTCAACCTGTCCTACCATGCTCTCC
ACAAACCCTGATGATCTTGACATGTTAAGACATCACGCTATTCACATTTG
TGAAATGGTCACATTTTAAAGTCTACTTTTTTTGAAATGTACATAATCAA
ACATGTAACCTTGAGCTTTGTAATGATCTTTCAATTCGAAATCTTTATCT
GCCAAAGTTGATACCCACGTTGTGGCTGGGGATAATTTCTCGGCCATAGG
TAA
ATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXACTTTAGGAGACCACAGTGGCAGTAACTTTGGGCT
TAACTTTAAGGTCTATATCAAGATCTCTGAGGTTTGATAAAGACACTCCC
AACGCCCAGGCACTCTGAATGTACCTCAGCCTGAATTAAACCACTATCAT
GAACAATGCCTGGACTGTCCATTTCCCCTTCATCCTCAGTATTCCTCCTT
TAATCCCATTTAGATTTTGGATTACCTGGCTGTCCCTGCCACACCCTGGG
AGTCTAAGCTCATGTGCCCTCATGTGCTTTCCTCTGAACCTGCAATAGGT
GGTAGGAAAATCTCAAATCCTTTTGGAATTTGAGCTAGTTCCACAACTAG
CATGAATACATGATTTTATTTATTTATTTATCTATTTATTTATTGGCTTA
GACCTGCCCTCAGTTGCTAACTCTTCTCTTAGATTTTCACCTTCACCTCA
GGTCAACACTTACCTTGCCCCCACTCTGACATGAACTTGGGCTCTGCTTT
TATTTTATGCTCTTCTCCAGCCTTGTGTTGAAACAATCCCCATGGTTTGC
TGTGCCCCGCTGCTTCAGCTTGTCTTTATGGTTAGAACAGGCTCAGTTTA
TTCAACAGGCTTTGGGACTAGAGCGGTCTCACGGTCCTCTCAATTGTA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no080_k03.b1 MSMg01no080_k03.b1 CHROMAT_FILE:
MSMg01no080_k03.b1 PHD_FILE: MSMg01no080_k03.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:29:36 2005
         (527 letters)



>mm_chr1_40733708_40734635
          Length = 928

 Score =  884 bits (457), Expect = 0.0
 Identities = 511/529 (96%), Gaps = 3/529 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   gagtatgtcaccactatcattgtgatgaacgaatgggatgctgattgcttgtgagtggta 60
           |||||||||| ||||||||||||||||||||||||||||||| | |||||||||||||||
Sbjct: 728 gagtatgtcatcactatcattgtgatgaacgaatgggatgctaactgcttgtgagtggta 669

                                                                       
Query: 61  gtggccccctggtgccacagcaggacgccagggctctctttacaggatagtcctagtgta 120
           |||||||||||||||||||||||| |||||| ||||||||| ||||| ||||||||||||
Sbjct: 668 gtggccccctggtgccacagcagggcgccagtgctctctttccaggacagtcctagtgta 609

                                                                       
Query: 121 ggtctactaaactagcccagcctgagctagatctctgggcaggaacccgagaatgactcc 180
           ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct: 608 ggtctactaaactagcccagcctgagctagatcgctgggcaggaacccgagaatgactcc 549

                                                                       
Query: 181 actagacaatgctggctccgggtctgcattccacaatacctaagaccagaagcactggga 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 548 actagacaatgctggctccgggtctgcattccacaatacctaagaccagaagcactggga 489

                                                                       
Query: 241 tttaggattcctcca-ccatatttggggacacttgcatgaatgtaaagtggtgtttagta 299
           ||||||||||||||| |||||||||||||||||||||||||||||||||| |||||||||
Sbjct: 488 tttaggattcctccacccatatttggggacacttgcatgaatgtaaagtgttgtttagta 429

                                                                       
Query: 300 tgcttgtgctgtcactgcgatccctgacattgggtcagttttccacttgtacactcttgt 359
           |||||||||||||||| |||||||||||||||||||| ||||||||||||||||||||||
Sbjct: 428 tgcttgtgctgtcacttcgatccctgacattgggtcaattttccacttgtacactcttgt 369

                                                                       
Query: 360 cagcattcaaaacactacagcttttgtagggctttgttacaga-ttttaaagtagacatt 418
           ||||||||||||||||||||||||| ||||| ||||||||||| ||||||| ||||||||
Sbjct: 368 cagcattcaaaacactacagcttttttagggttttgttacagatttttaaa-tagacatt 310

                                                                       
Query: 419 caacctgtcctaccatgctctccacaaaccctgatgatcttgacatgttaagacatcacg 478
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 309 caacctgtcctaccatgctctccacaaaccctgatgatcttgacatgttaagacatcacg 250

                                                            
Query: 479 ctattcacatttgtgaaatggtcacattttaaagtctactttttttgaa 527
           ||||||||||||||||||||||||||||||||||||| | |||||||||
Sbjct: 249 ctattcacatttgtgaaatggtcacattttaaagtctcccttttttgaa 201


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: 20
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: 527
Length of database: 928
Length adjustment: 10
Effective length of query: 517
Effective length of database: 918
Effective search space:   474606
Effective search space used:   474606
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= MSMg01no080_k03.g1 MSMg01no080_k03.g1 CHROMAT_FILE:
MSMg01no080_k03.g1 PHD_FILE: MSMg01no080_k03.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:29:36 2005
         (548 letters)



>mm_chr1_40571072_40572019
          Length = 948

 Score =  940 bits (486), Expect = 0.0
 Identities = 534/550 (97%), Gaps = 4/550 (0%)
 Strand = Plus / Plus

                                                                       
Query: 1   actttaggagaccacagtggcagtaactttgggcttaactttaaggtctatat-caagat 59
           |||| ||||||||||| |||||||||||||||||||||||||||||||||||| || |||
Sbjct: 201 acttcaggagaccacactggcagtaactttgggcttaactttaaggtctatattca-gat 259

                                                                       
Query: 60  ctctgaggtttgataaagacactcccaacgcccaggcactctgaatgtacctcagcctga 119
           |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 260 ctctgaggtttgataaggacactcccaacgcccaggcactctgaatgtacctcagcctga 319

                                                                       
Query: 120 attaaaccactatcatgaacaatgcctggactgtccatttccccttcatcctcagtattc 179
           ||||||||| ||||||||||||||||||| || ||| |||||||||||||||||||||||
Sbjct: 320 attaaaccattatcatgaacaatgcctggtctatccgtttccccttcatcctcagtattc 379

                                                                       
Query: 180 ctcctttaatcccatttagattttggattacctgg-ctgtccctgccacaccctgggagt 238
           ||||||||||||||||||||||||||||||| ||| ||||||||| ||||||||||||||
Sbjct: 380 ctcctttaatcccatttagattttggattac-tgggctgtccctgtcacaccctgggagt 438

                                                                       
Query: 239 ctaagctcatgtgccctcatgtgctttcctctgaacctgcaataggtggtaggaaaatct 298
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 439 ctaagctcatgtgccctcatgtgctttcctctgaacctgcaataggtggtaggaaaacct 498

                                                                       
Query: 299 caaatccttttggaatttgagctagttccacaactagcatgaatacatgattttatttat 358
           ||||||||||||| ||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct: 499 caaatccttttgggatttgagctagttccacaattagcatgaatacatgattttatttat 558

                                                                       
Query: 359 ttatttatctatttatttattggcttagacctgccctcagttgctaactcttctcttaga 418
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 559 ttatttatctatttatttattggcttagacctgccctcagttgctaactcttctcttaga 618

                                                                       
Query: 419 ttttcaccttcacctcaggtcaacacttaccttgcccccactctgacatgaacttgggct 478
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 619 ttttcaccttcacctcaggtcaacacttaccttgcccccactctgacatgaacttgggct 678

                                                                       
Query: 479 ctgcttttattttatgctcttctccagccttgtgttgaaacaatccccatggtttgctgt 538
           |||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||
Sbjct: 679 ctgcttttattttatgctcttctccagccttgtgctgaaacaatccccatggtttgctgt 738

                     
Query: 539 gccccgctgc 548
           ||||||||||
Sbjct: 739 gccccgctgc 748


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: 25
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: 548
Length of database: 948
Length adjustment: 10
Effective length of query: 538
Effective length of database: 938
Effective search space:   504644
Effective search space used:   504644
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)