BAC Information

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BAC

Clone NameMSMg01-171D05
Chromosome5 (Build37)
Map Location 71,998,085 - 72,141,751
singlet/doubletdoublet
Overlap geneGabra4, Gabrb1
Upstream geneGabrg1, Gabra2, LOC635092, 4930503B16Rik
Downstream geneLOC666545, Commd8, Atp10d, Corin, Nfxl1, Zar1, EG545758, Cnga1, LOC384275, Npal1, Txk
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-171D05.T7 (MSMg01no171_d05.b1)MSMg01-171D05.TJ (MSMg01no171_d05.g1)
ACCAG367518AG367519
length709729
length of high quality
(start - end)
331 (10 - 340)291 (76 - 366)
definitionCHROMAT_FILE: MSMg01no171_d05.b1 PHD_FILE: MSMg01no171_d05.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:41:22 2005CHROMAT_FILE: MSMg01no171_d05.g1 PHD_FILE: MSMg01no171_d05.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:41:22 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(71,998,085 - 71,998,401)(72,141,459 - 72,141,751)
sequence
GACTCCTATAGGGAGAGGATCCGCGGAATTCATTTTTAATGAACATAATA
NCAACAGGAATTCCTATATAAAAGTCTAATTCTATTTCTTATGAATTGCT
GGAGGATACTAAAATAGCTTTCTGTCAGCGCTCAGGTCCCCATTGACTAT
AATCTATTTTAGTCCCCAAATGTATTCTTGTTCTGTGGATAATAGGTAAC
CTCCTTGGTGCCATTTTTAGAACAGCCCCATTAGCAAACATTAGGCAGAC
AGCGTGTGAACATTTTTCAGGATCTGCTGGAGCAAAGTGGGATTCTTGCA
TATGCAGCAATAGTGAGCCTAGCACACTGGAAAGTGCCCTTTTTTTCCTC
GCCCCCCCCCCAACCTCAGCTGCTTCAAGTCAAACTGAAATAAAGCAACT
TACAAAAAGTACATGCGGATAACAGTAAGATGTCCACAAATGATTTACTC
CCTCTACCTCGGGCACACTGTATGTAGCTCCAAATTTATAATATTTCGGC
TGTAATATACCAGTATCCATGACAACAAAAGTCTAGCATTCAACTTAGCA
GTGCTGGTAATTATAATCACCGAAAATGCCCTATTTATTACTTTACTGAC
CCTTTTAAAGATCCGGCTATTTCACTATCATTCATATTTGCCTCATCTTT
ACTTCATAAAATTATCTTCTTTCACCTAATTTTTTTTAACCCTTTGCTTT
TTACACATT
TCATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXTAAACTTTGTGTTTGTGCTAATTCG
ATATTTCCTTTCATTCCCTGCATCAAATGCTAATACAAACAATACTTCTA
TTGTCATAGGCAACCTGTGAATTGATTTTAAAGATTAAAGGCTGTCTGGA
TACAAAGTGGTTTTAGTTGACTTTCAAATCCCATTTTCACTTCTTTTGAA
AGCAACAAAAATGTGTAGATTAAAATATGAACAAAAGTCATAGAATCTAA
AGGAGATTAACATATGCACTTCATTTTTTTTCATTAAATGTTCAGTGTTT
CAAATATATGTACTGCATTGCCACACTGCCAATTTGAGGCACCTTTGTGT
GTGTAAATTCAGCAATTAAGTCAAAATTGTTGAACTAAATGGAACCGAGG
AGTTCATAAAGAACAAACTGCCTCATCTTGTTTTAGAGATGAAACTGAAT
GCAAGCTAATGTCTTAAGCAAAGCCATGTGATGTATTAGAGAAAGCCGTA
GGAAAGAGCAAACGGGCGCTCCTGATGCCCTATGGCACCTGCAACCCAAT
GGCTCCCAAGAGAGATGCTTTTGCTTTTGAAATGTCCTCTTGGGACTTTG
CATCACCACCGTGTGGAGATTAAAGACCACTGGGGTGACAGGAGATGGTC
CCAGAATTGAAAAGGATAAGTAGAGACCT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no171_d05.b1 MSMg01no171_d05.b1 CHROMAT_FILE:
MSMg01no171_d05.b1 PHD_FILE: MSMg01no171_d05.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:41:22 2005
         (331 letters)



>mm_chr5_71997870_71998602
          Length = 733

 Score =  569 bits (294), Expect = e-166
 Identities = 311/317 (98%), Gaps = 2/317 (0%)
 Strand = Plus / Plus

                                                                       
Query: 16  ggaattcatttttaatgaacataatancaa-caggaattcctatataaaagtctaattct 74
           |||||||||||||||||||||||| | ||| |||||||||||||||||||||||||||||
Sbjct: 216 ggaattcatttttaatgaacataaaaacaaacaggaattcctatataaaagtctaattct 275

                                                                       
Query: 75  atttcttatgaattgctggaggatactaaaatagctttctgtcagc-gctcaggtcccca 133
           |||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 276 atttcttatgaattgctggaggatactaaaatagctttctgtcagccgctcaggtcccca 335

                                                                       
Query: 134 ttgactataatctattttagtccccaaatgtattcttgttctgtggataataggtaacct 193
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 336 ttgactataatctattttagtccccaaatgtattcttgttctgtggataataggtaacct 395

                                                                       
Query: 194 ccttggtgccatttttagaacagccccattagcaaacattaggcagacagcgtgtgaaca 253
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 396 ccttggtgccatttttagaacagccccattagcaaacattaggcagacagcgtgtgaaca 455

                                                                       
Query: 254 tttttcaggatctgctggagcaaagtgggattcttgcatatgcagcaatagtgagcctag 313
           |||||||||||||||||||||||||||||||||||||| | |||||||||||||||||||
Sbjct: 456 tttttcaggatctgctggagcaaagtgggattcttgcagaggcagcaatagtgagcctag 515

                            
Query: 314 cacactggaaagtgccc 330
           |||||||||||||||||
Sbjct: 516 cacactggaaagtgccc 532


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: 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: 331
Length of database: 733
Length adjustment: 9
Effective length of query: 322
Effective length of database: 724
Effective search space:   233128
Effective search space used:   233128
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= MSMg01no171_d05.g1 MSMg01no171_d05.g1 CHROMAT_FILE:
MSMg01no171_d05.g1 PHD_FILE: MSMg01no171_d05.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:41:22 2005
         (291 letters)



>mm_chr5_72141259_72141951
          Length = 693

 Score =  547 bits (283), Expect = e-160
 Identities = 290/293 (98%), Gaps = 2/293 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   taaactttgtgtttgtgctaattcgatatttcctttcattccctgcatcaaatgctaata 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 493 taaactttgtgtttgtgctaattcgatatttcctttcattccctgcatcaaatgctaata 434

                                                                       
Query: 61  caaacaatacttctattgtcataggcaacctgtgaattgattttaaagattaaaggctgt 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 433 caaacaatacttctattgtcataggcaacctgtgaattgattttaaagattaaaggctgt 374

                                                                       
Query: 121 ctggatacaaagtggttttagttgactttcaaatcccattttcacttcttttgaaagcaa 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 373 ctggatacaaagtggttttagttgactttcaaatcccattttcacttcttttgaaagcaa 314

                                                                       
Query: 181 caaaaatgtgtagattaaaatatgaacaaaagtcatagaatctaaaggagattaacatat 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 313 caaaaatgtgtagattaaaatatgaacaaaagtcatagaatctaaaggagattaacatat 254

                                                                
Query: 241 gcacttca--ttttttttcattaaatgttcagtgtttcaaatatatgtactgc 291
           ||||||||  ||||||||||||||||| |||||||||||||||||||||||||
Sbjct: 253 gcacttcattttttttttcattaaatggtcagtgtttcaaatatatgtactgc 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: 15
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: 291
Length of database: 693
Length adjustment: 9
Effective length of query: 282
Effective length of database: 684
Effective search space:   192888
Effective search space used:   192888
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)