BAC Information

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BAC

Clone NameMSMg01-392N17
Chromosome2 (Build37)
Map Location 38,576,879 - 38,710,749
singlet/doubletdoublet
Overlap geneNr6a1
Upstream geneDennd1a, LOC100040947, Lhx2, Nek6, Psmb7, LOC674251, Nr5a1
Downstream geneOlfml2a, LOC624652, LOC100041071, 1700123D08Rik, Rpl35, Arpc5l, Golga1, A930041I02Rik, LOC100042584, Ppp6c, Vmn2r-ps2, Ppia-ps2_560.1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-392N17.T7 (MSMg01no392_n17.b1)MSMg01-392N17.TJ (MSMg01no392_n17.g1)
ACCAG494293AG494294
length792786
length of high quality
(start - end)
459 (48 - 506)246 (77 - 322)
definitionCHROMAT_FILE: MSMg01no392_n17.b1 PHD_FILE: MSMg01no392_n17.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:37:32 2005CHROMAT_FILE: MSMg01no392_n17.g1 PHD_FILE: MSMg01no392_n17.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:37:32 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(38,576,879 - 38,577,333)(38,710,504 - 38,710,749)
sequence
NCCTTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGC
GGAATTCCTGAGTTCTCCCTAGTTAGGTCTCCTTACGCAAACTATTTATT
GTTTGGGGCTTCAGTTTACTCATCTGTAAAATGGGATCATTACAGCACAC
ACTTCACTGAGCTGCTCTGGAATGTGACCTCAGTCACCCACTCTACATCT
GTATCACTTAGGACTTTAGTGCTGGAACAGAACACTAAGCTATAACCCTT
CATTCTTTCTTCCTAGACTGTCACAGCACAACCCAGGAAGTTCAAAGCTC
ACCATTACTTAAGAAGCAACTTATATATTTGGGAGAGCACTACCCCTAAT
TTTACCCCATGGAATGCTGACTCAACAGAACTTTTACAGATGACAAAAGT
AAACCCAACAAACAGGCAGTTTTGGTGCATCCTGGCTGGGCTAAGTGGGG
TGTTCCTTCACGTAGGGCTTCCCAGAGCCTTGGCTATAGACCAAGGAGGG
TTGGGAGTCTGGGATCAATAGTGTGGCATTTCCTCAGTTTCTGGCACACC
CTTCACTTCCAGAACTGTTTCTTTTTTTGACAAACCCCTCCTGAGCGACT
ATTGTCCAAAAAAACCCCGGCTGGGGTCTTGGGACACCCTTGCCTTCCCG
CCCTATTATTTCCTACCCCGTCTACACGCTCAAGGTTTAATCCCCCTCCT
CCTTCTGTTTGCTTCCTACATCTACCAACCTGTCATCCCCCCTCCCCCTG
TTCTTTAATTCCCTTACAACACTTCATCCCCGCCCTTTACCT
NCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXTCTCCTTTCCTGTCCATGCAAAGA
TAGTTTGAAACACTAAACTGACAAGACACTTCTGTTGTCTTTCTCTTAGA
CTTCAGTTGTATAATAATTAATTTACAACTAAGGCTCATGTTTTTATTTC
CTTAGCAGGAAATATTTTGTGGCTTATCTTACAGTATAGGATTTGGAGAA
TTGATACTCTCCTTTAGTTTTTGTTACCATAAAATGTTTCCTGTCTCACT
TGGCTGTTTTTCTTGTTATAAGAATGTATCTTGGGAAAGTAAGAATAGAT
GGTCTTGGCCAGGAGAGCCTTTTTTTCCCTCTCTTGGAGGGCGCTCCACC
CCCCAACCCCCTGTATTCCCCCCACCACCCTTTGTCATTTCTCACACCGA
CAACCCATCGAGGGTCCAGGGTTCCTCCTTTTCCTTGTGATCGTTTTCCC
CGGAATCCCCTCTCTACCCGTTCCATTGGCCTCCTACCCTCTCTCTCGCA
TCTCCTCTCTCCCGCTCGGTTTCCTCCCCACGCCTGCTTTCTCCCCCTTT
ATCCTCTTTCCGCTGCATCCCATCTCTCTTGTCTGCTTCTCCCTGTTCTC
GCCCCCTCTTCCGTCTTACCTCCCTTCCACATTTTCTCTTCCTATTCCCC
CCCCCCTGGCGTCTTCTCTCCCCCCTACCTTCCCCCTCCTCTTTTTTCCC
TTCCCTCCTCCCCCTTCCTTTCCTCTTTTTCCCCCN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no392_n17.b1 MSMg01no392_n17.b1 CHROMAT_FILE:
MSMg01no392_n17.b1 PHD_FILE: MSMg01no392_n17.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:37:32 2005
         (459 letters)



>mm_chr2_38576675_38577533
          Length = 859

 Score =  849 bits (439), Expect = 0.0
 Identities = 451/455 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcctgagttctccctagttaggtctccttacgcaaactatttattgtttggggctt 64
           |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattcctgagtgctccctagttaggtctccttacgcaaactatttattgtttggggctt 264

                                                                       
Query: 65  cagtttactcatctgtaaaatgggatcattacagcacacacttcactgagctgctctgga 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 cagtttactcatctgtaaaatgggatcattacagcacacacttcactgagctgctctgga 324

                                                                       
Query: 125 atgtgacctcagtcacccactctacatctgtatcacttaggactttagtgctggaacaga 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 atgtgacctcagtcacccactctacatctgtatcacttaggactttagtgctggaacaga 384

                                                                       
Query: 185 acactaagctataacccttcattctttcttcctagactgtcacagcacaacccaggaagt 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 acactaagctataacccttcattctttcttcctagactgtcacagcacaacccaggaagt 444

                                                                       
Query: 245 tcaaagctcaccattacttaagaagcaacttatatatttgggagagcactacccctaatt 304
           |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 445 tcaaagctcaccattacttaagaagcaacttagatatttgggagagcactacccctaatt 504

                                                                       
Query: 305 ttaccccatggaatgctgactcaacagaacttttacagatgacaaaagtaaacccaacaa 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 ttaccccatggaatgctgactcaacagaacttttacagatgacaaaagtaaacccaacaa 564

                                                                       
Query: 365 acaggcagttttggtgcatcctggctgggctaagtggggtgttccttcacgtagggcttc 424
           ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 565 acaggtagttttggtgcatcctggctgggctaagtggggtgttccttcacgtagggcttc 624

                                              
Query: 425 ccagagccttggctatagaccaaggagggttggga 459
           |||||||||||||||||||| ||||||||||||||
Sbjct: 625 ccagagccttggctatagacaaaggagggttggga 659


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: 24
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: 459
Length of database: 859
Length adjustment: 10
Effective length of query: 449
Effective length of database: 849
Effective search space:   381201
Effective search space used:   381201
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= MSMg01no392_n17.g1 MSMg01no392_n17.g1 CHROMAT_FILE:
MSMg01no392_n17.g1 PHD_FILE: MSMg01no392_n17.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:37:32 2005
         (246 letters)



>mm_chr2_38710304_38710949
          Length = 646

 Score =  468 bits (242), Expect = e-136
 Identities = 245/246 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   tctcctttcctgtccatgcaaagatagtttgaaacactaaactgacaagacacttctgtt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 446 tctcctttcctgtccatgcaaagatagtttgaaacactaaactgacaagacacttctgtt 387

                                                                       
Query: 61  gtctttctcttagacttcagttgtataataattaatttacaactaaggctcatgttttta 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 386 gtctttctcttagacttcagttgtataataattaatttacaactaaggctcatgttttta 327

                                                                       
Query: 121 tttccttagcaggaaatattttgtggcttatcttacagtataggatttggagaattgata 180
           |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 326 tttcattagcaggaaatattttgtggcttatcttacagtataggatttggagaattgata 267

                                                                       
Query: 181 ctctcctttagtttttgttaccataaaatgtttcctgtctcacttggctgtttttcttgt 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 266 ctctcctttagtttttgttaccataaaatgtttcctgtctcacttggctgtttttcttgt 207

                 
Query: 241 tataag 246
           ||||||
Sbjct: 206 tataag 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: 11
Number of extensions: 2
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: 246
Length of database: 646
Length adjustment: 9
Effective length of query: 237
Effective length of database: 637
Effective search space:   150969
Effective search space used:   150969
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)