BAC Information

Click to search

BAC

Clone NameMSMg01-392J12
Chromosome5 (Build37)
Map Location 38,204,095 - 38,407,418
singlet/doubletdoublet
Overlap geneMsx1
Upstream geneMan2b2, Ppp2r2c, Wfs1, Jakmip1, EG330070, Gm1043, LOC100040936, Crmp1, Evc, Evc2, LOC100040355, LOC100040988, Stk32b, Cytl1
Downstream geneStx18, Nsg1, LOC100040397, Zfp509, Lyar, Tmem128, Otop1, Drd5, 4930487D11Rik, Slc2a9, Wdr1, 4930421P07Rik, 6820424L24Rik, Clnk
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-392J12.T7 (MSMg01no392_j12.b1)MSMg01-392J12.TJ (MSMg01no392_j12.g1)
ACCAG494092AG494093
length743799
length of high quality
(start - end)
243 (76 - 318)178 (71 - 248)
definitionCHROMAT_FILE: MSMg01no392_j12.b1 PHD_FILE: MSMg01no392_j12.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:37:10 2005CHROMAT_FILE: MSMg01no392_j12.g1 PHD_FILE: MSMg01no392_j12.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:37:10 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(38,204,095 - 38,204,335)(38,407,242 - 38,407,418)
sequence
CCCCCCCTCXXXXXXXXXXXXXXXXXXXXXXXXXCCATTCACCCACTCAC
CGCGGAATCTCTGTTCCCAAACAACCTCTCAGGCACAGCACAGACAGCCC
TACCTCAGGGACTTTGCAATTGCTGCTTCTACCTGGAATGCTGACCTTCT
GGCTACATCAAGTCACCAAAGGGCAGTAAAGGAAGCTCAAGCCATTGTCT
CTAGCTCTCAGCTCCCAGAGGCCACCATGCCTTCCCTTCTTACAGTGTAA
TTTAAGATAAACCTTCTCTCCCTTAAATAGCTTAAGTAGCTTGTCAAGGG
TTTGGTCACAAAAACATTAATACATTCCCTTTCTGAGCTGTAAGCTGACC
TGGCTTGGTGGCTTACCTTTCACTGTCCTTGGTGCTAGTCACCTTCATGG
AAAAACACTCATTTTGCCCACCAAATGTTGGTGAATTAAACCTGTGTCCT
TGGAAACCAACCCAACCACCTTATACCATTCAACCTGAAGAATTAGATCC
ATCACGTTTAAAACAAAATAAGAGAAGAAGCAAGCGGTCCCCACACTTGG
AAGGGCAGGGCACGAGAATCACAAGTGTGAGGCAGCCTGGGTCACACAAG
AGACCCTTTCTCACAGAAATCAAAGGTATCTACCACTGTAACATAACTCT
ATTTTTCGTCGACCACTGAACCAAAGGGCGTGGCAGAGTCCACCCCGGCA
CCTCCTGGCCCCTTTCTCTAATCCCCCCAAACCTCTCGGAACG
CATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXTCAGAAACTCCCAAGATGAACTCAAGGGAACCATCTTGGT
GGCCCAAGGAGAACATTTGCAGTCTGTGGGTTGGATGTCCATCTTCTTAC
CTGCAGCCAAACCAGGAGCTGTCAGTGGTAGGTAACCCAGGGATGCTGGG
ATCTGTTTTTGTTTTGTTTTAGTGGTTTTGCCAGAACTCTCGAGGACATA
TTCTGAAGACTTAGAAAATCCAGACTCACCCTCCTCACCCATTTTCTCAA
AGCCCCTGGATTAAGGTTGCATCCTGGGAGTTTGGGAGATGGGGAGCTAG
CTCTGGTTATTTCGCCCATGTGACTGGGGACTCTAAGCTTGCTTCTCACT
CTCTCCAAGCCCCCCCCCTCTCCTTATGAAACCCACAGGTTGTAGGCTAT
CCCCCCCCCCCTTTATGCTCCACATTGCTCGCCTTCCGCCTTTGTCCCTT
TTGCCGTTTACCGTTTTTGGCTGCCTCCCCTTTCTCTCCTCCACCTCGTT
ATTCTCCCCCCTTCCTTTCTCCCCTTTTTATCTTTCCGTTCCCTTCCCCC
CTCCCCCCCCTTCTCCCTTTACCTTTTCTCTTTCCCTCTTTCCATCCCCA
CCCCTTTTCTTTCCCCCCCGCCGCACCCCTCCTTTCTTTCCCCTTCATTC
ACACACCTCGTTCCCCCCCTCCTCCTCTTCTCTTCCCCTCCTCTTTTCCC
TCTCTTTTCTGCCTGTTTCATTCCCCTATCTCCTCTCTTTCCCCCTCTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no392_j12.b1 MSMg01no392_j12.b1 CHROMAT_FILE:
MSMg01no392_j12.b1 PHD_FILE: MSMg01no392_j12.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:37:10 2005
         (243 letters)



>mm_chr5_38203895_38204537
          Length = 643

 Score =  443 bits (229), Expect = e-129
 Identities = 238/241 (98%)
 Strand = Plus / Plus

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

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

                                                                       
Query: 121 tgtctctagctctcagctcccagaggccaccatgccttcccttcttacagtgtaatttaa 180
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||   ||
Sbjct: 321 tgtctctagctctcagctcccagaggccaccatgccttcccttcttacagtgtaagccaa 380

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

            
Query: 241 a 241
           |
Sbjct: 441 a 441


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: 12
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: 243
Length of database: 643
Length adjustment: 9
Effective length of query: 234
Effective length of database: 634
Effective search space:   148356
Effective search space used:   148356
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= MSMg01no392_j12.g1 MSMg01no392_j12.g1 CHROMAT_FILE:
MSMg01no392_j12.g1 PHD_FILE: MSMg01no392_j12.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:37:10 2005
         (178 letters)



>mm_chr5_38407042_38407619
          Length = 578

 Score =  335 bits (173), Expect = 1e-96
 Identities = 176/177 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   ccaagatgaactcaagggaaccatcttggtggcccaaggagaacatttgcagtctgtggg 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 377 ccaagatgaactcaagggaaccatcttggtggcccaaggagaacatttgcagtctgtggg 318

                                                                       
Query: 61  ttggatgtccatcttcttacctgcagccaaaccaggagctgtcagtggtaggtaacccag 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 317 ttggatgtccatcttcttacctgcagccaaaccaggagctgtcagtggtaggtaacccag 258

                                                                    
Query: 121 ggatgctgggatctgtttttgttttgttttagtggttttgccagaactctcgaggac 177
           |||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 257 ggatgctgggatctttttttgttttgttttagtggttttgccagaactctcgaggac 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: 9
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: 178
Length of database: 578
Length adjustment: 8
Effective length of query: 170
Effective length of database: 570
Effective search space:    96900
Effective search space used:    96900
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)