BAC Information

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BAC

Clone NameMSMg01-139N16
Chromosome6 (Build37)
Map Location 28,591,093 - 28,775,019
singlet/doubletdoublet
Overlap geneSnd1
Upstream geneGrm8, 6530409C15Rik, AA407452, LOC100041304, LOC384360, Gcc1, Arf5, Fscn3, Pax4, LOC100041350
Downstream geneLrrc4, LOC100041367, Lep, Rbm28, D330027H18Rik, Impdh1, 2310016C08Rik, AI507611, BC048651, Calu, Opn1sw, 4921511K06Rik, Flnc, Atp6v1f, EG668210, Crim2, Irf5, Tnpo3, Tspan33, Smo, 4631427C17Rik
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-139N16.T7 (MSMg01no139_n16.b1)MSMg01-139N16.TJ (MSMg01no139_n16.g1)
ACCAG345150AG345151
length716715
length of high quality
(start - end)
367 (44 - 410)489 (71 - 559)
definitionCHROMAT_FILE: MSMg01no139_n16.b1 PHD_FILE: MSMg01no139_n16.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:57:23 2005CHROMAT_FILE: MSMg01no139_n16.g1 PHD_FILE: MSMg01no139_n16.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:57:23 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(28,774,657 - 28,775,019)(28,591,093 - 28,591,305)
sequence
AGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAA
TTCCAGCTCCTTCCCTTCCTAGTCTTATGACTTAGCAAGCACCGAGTGTC
TTCATCTGTAAAATGAAGACTATTAATTCATATGTGCTTCACTACTTCAT
AGGCTGCTGTAAACATTGAGAATTTGTATATTTATCTCACACTTAGTGTG
GTGGCTGATGTGGTATAGTAGGTATTTTATAGGTGGCAGCTGTTTGATGA
TTTAAATATACAGACCAAAGACCAGTGCCCATTTATTACCTCTACCCTTG
AACCCTGTGTCTTCTCACTTTCTTTCTGCCATAGGGAAAGAATGGTTATC
TGTGAGTTGGAGACAATGCTACTTAAAAACCCAAACCTAAGAGGAAAAGA
TGGTTGTATTTTGCTTCGTGTTCTGTACCTAACTAACTCTGCAGCTGGCC
CACAACACTGTCTTATTCAAGGAATGGATTACTGTTTGATCACGTTGCTT
TCTGCTACTAGTGATGTACACCCCGAGGAACATCAGGTATTTTCTGCCCA
GGGAGCCTTAGTCCTTACCATCATGCCATGCTTCCTAAACTCTTTCAGAA
TCCGTTGTTCTTTTTTAGTTCTTCTGTTTTCATATTACCCATGTTTGCCC
TCCCCATGCCTCTTTGTTTTACACCCTGATCCTGTCTGCCTTATAGTCCG
CCCGAATTACTATCAC
AATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXCAGAAATTCTAAACCCTAGATCTTGGTCAAGGACGCC
CTTGGACCGTTGGAACACTGGCGGAAGGCTTTAGCCATGTCAGAGCACTT
ATAGAGAAATACTGAAAGAGAGCACGTGGATCCATACTCTAGACTAGCGT
GGTACTGGAACTCGGGAATGAAAAATTAATGTATGGGTAGAGAACACTAG
CCTCCAGGAGGAGAGCTTCCTTGAAACTCTTTTGCCTCATGAGTGACTTT
TAAGCCTTTCGGCTTGTCCAGTTGACTCGACCAGAGAGCGTAGCAAAGAG
GCAGGTGCTTGCTCCTGTTTAGGTGACCCATGGCCTCTTTCAGACTCTAT
GTGAAGGGGCCCACAGTGCTGCAGGTCTCCCCTCACTGGGATGGCCCCTT
TCCTGGCTGCATGTTGTCATCCTTGTATAGAGCCAGCGCTCCTCGTGGGT
CATCTTTCACTGCTTCCCTGTTTGTTTCCTTCTTTCTTTCTATTGCAAAG
AATTTTTTTGGTTGATATTGTTTTTGTTTTTCACATTGATAGGACTTTTT
TTGTAGCCACCAAACATACTTTTTATAGGACTTTTTACAACTCAACTCTT
AAACAGAATTTTTTTAACGGCCGTTTTATGTATCGTATCTTACATTCTTT
TCTTTTTACCAACAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no139_n16.b1 MSMg01no139_n16.b1 CHROMAT_FILE:
MSMg01no139_n16.b1 PHD_FILE: MSMg01no139_n16.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:57:23 2005
         (367 letters)



>mm_chr6_28774265_28775031
          Length = 767

 Score =  656 bits (339), Expect = 0.0
 Identities = 357/363 (98%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattccagctccttcccttcctagtcttatgacttagcaagcaccgagtgtcttcatct 64
           ||||||||||||| || |||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 755 gaattccagctccatcacttcctagtcttatgacttagcaagcactgagtgtcttcatct 696

                                                                       
Query: 65  gtaaaatgaagactattaattcatatgtgcttcactacttcataggctgctgtaaacatt 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 695 gtaaaatgaagactattaattcatatgtgcttcactacttcataggctgctgtaaacatt 636

                                                                       
Query: 125 gagaatttgtatatttatctcacacttagtgtggtggctgatgtggtatagtaggtattt 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 635 gagaatttgtatatttatctcacacttagtgtggtggctgatgtggtatagtaggtattt 576

                                                                       
Query: 185 tataggtggcagctgtttgatgatttaaatatacagaccaaagaccagtgcccatttatt 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 575 tataggtggcagctgtttgatgatttaaatatacagaccaaagaccagtgcccatttatt 516

                                                                       
Query: 245 acctctacccttgaaccctgtgtcttctcactttctttctgccatagggaaagaatggtt 304
           |||||||||||||||||||||||||||||| ||||  |||||||||||||||||||||||
Sbjct: 515 acctctacccttgaaccctgtgtcttctcattttcactctgccatagggaaagaatggtt 456

                                                                       
Query: 305 atctgtgagttggagacaatgctacttaaaaacccaaacctaagaggaaaagatggttgt 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 455 atctgtgagttggagacaatgctacttaaaaacccaaacctaagaggaaaagatggttgt 396

              
Query: 365 att 367
           |||
Sbjct: 395 att 393


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: 367
Length of database: 767
Length adjustment: 9
Effective length of query: 358
Effective length of database: 758
Effective search space:   271364
Effective search space used:   271364
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= MSMg01no139_n16.g1 MSMg01no139_n16.g1 CHROMAT_FILE:
MSMg01no139_n16.g1 PHD_FILE: MSMg01no139_n16.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:57:23 2005
         (489 letters)



>mm_chr6_28590617_28591505
          Length = 889

 Score =  397 bits (205), Expect = e-114
 Identities = 211/213 (99%)
 Strand = Plus / Plus

                                                                       
Query: 277 agaggcaggtgcttgctcctgtttaggtgacccatggcctctttcagactctatgtgaag 336
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 477 agaggcaggtgcttgctcctgtttaggtgacccatggcctctttcagactctatgtgaag 536

                                                                       
Query: 337 gggcccacagtgctgcaggtctcccctcactgggatggcccctttcctggctgcatgttg 396
           ||||||||||||||||||||||||||||||||||||||| |||||||||||||||||| |
Sbjct: 537 gggcccacagtgctgcaggtctcccctcactgggatggctcctttcctggctgcatgtcg 596

                                                                       
Query: 397 tcatccttgtatagagccagcgctcctcgtgggtcatctttcactgcttccctgtttgtt 456
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 597 tcatccttgtatagagccagcgctcctcgtgggtcatctttcactgcttccctgtttgtt 656

                                            
Query: 457 tccttctttctttctattgcaaagaattttttt 489
           |||||||||||||||||||||||||||||||||
Sbjct: 657 tccttctttctttctattgcaaagaattttttt 689


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: 489
Length of database: 889
Length adjustment: 10
Effective length of query: 479
Effective length of database: 879
Effective search space:   421041
Effective search space used:   421041
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)