BAC Information

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BAC

Clone NameMSMg01-080N20
Chromosome3 (Build37)
Map Location 49,969,272 - 50,107,963
singlet/doubletdoublet
Overlap geneLOC100039628
Upstream gene4932443G14, LOC545519, LOC676568, LOC666247, LOC100039579, LOC100039587, LOC638779, Pcdh18
Downstream geneLOC639469, Slc7a11, EG621304, LOC100039667, Ccrn4l, Elf2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-080N20.T7 (MSMg01no080_n20.b1)MSMg01-080N20.TJ (MSMg01no080_n20.g1)
ACCAG301600AG301601
length707708
length of high quality
(start - end)
246 (65 - 310)323 (67 - 389)
definitionCHROMAT_FILE: MSMg01no080_n20.b1 PHD_FILE: MSMg01no080_n20.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:29:54 2005CHROMAT_FILE: MSMg01no080_n20.g1 PHD_FILE: MSMg01no080_n20.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:29:54 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(50,107,719 - 50,107,963)(49,969,272 - 49,969,594)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCTT
TGATTATCCACTCAGCAGTGAGAGCACCGTGTGTGCAGTCAATCTTCCTC
CCCGCCTTTAGCAAGGGATCTCTGGCTGTTTAGTAGCATTGCAGATAAAT
AGCCTTTAATGTGGCCAGCCTATTCTTTGCTCAGGATTTATGCACAATGG
ATGTGACATGCTGTCCTTGTGGAGCAAGCATTCTAAAGAGCTGACGCTCC
TTTATACAAGTGATCAGGCAAGCATCGTACGCAGAGATATCACATCCTAA
GGGTAATGTGTTTCCAGGGGTCTACATTCACATAAACATGTTCAAGTACC
AAGTGTTATTTCTTTGACTTTGTGACCAAAATAGACTGCTTACATTTCAG
GTCATGTACCTAAAATATGTCCTAGATCTGGTTACTCAGACATTTCATGG
AAGCACTGGTCTCTGTGTGAACGGAATACGACAGAATGCTAACAAAATGT
AAAGGAACCAATAGACTCTAGATCATGAAAATACATACTACAAACATGAT
TCCAGGAAGGCAATTGATCCCAGATTTGCCGTGCCTGATGCTGAGCTACT
CTGATTCCAGTATCCCCGAGAAAGACCGCTGTTTTTACTGATCATAACCC
CCACCGTACCTTAGGTTATCCAACCACTATGCATCTTCGTTCGCTCCTAC
ACTTTTC
AGTGTGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXCCATTTGCCAATGATTAGTTGGTGAATAAAATGC
TATGGGAGGTCAACTTTGGAAACAGGGCTGTCTCTGGGGATACTCATCCT
TGTGAAAGCCCAAAGTCATCATCAGAAAACTTCAACTTAAATAAATATTA
TAGGAAAATATACAAGCTGTAGAAAACTCTGCATACAGCCTGGACAGATG
CCATTAGAGTTCAGAGCTCTTTCAGAGGAACCAGGTTCGGTTCTCAGCAG
CCACAGGGCATCACACACTTAATTATTACTCCATCTGAAGAGTGTCTGTG
TCCTTTCTTTTCACTCTGCAGACACTCCCAGACATAGGACATACAAATAT
AGACACCAGCTCTTATGAATACGTGAAAAATAAAACAAATTCTTAACAGC
AAAAGAAAACGTTGCATAATGTGAGGCAAGGAAAGACTCCTTACGAACCC
TGATAACAATCACTGACATGTTATATGTTGACTCCAGTAGACTGGAAACA
ACAAACAGATAACTAAGAAAAAAATAACTCCAGCGCTTAAATGCATTTAT
AAAGGTGGAACCACACTTATGCCAATCCAGGGACTGTTACTTTTTCCTAG
AAAGGCTGACCGAACTCTTCAATCACAAGCACGTAACATCCAGGTGAATT
TGGCTTTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no080_n20.b1 MSMg01no080_n20.b1 CHROMAT_FILE:
MSMg01no080_n20.b1 PHD_FILE: MSMg01no080_n20.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:29:54 2005
         (246 letters)



>mm_chr3_50107519_50108164
          Length = 646

 Score =  458 bits (237), Expect = e-133
 Identities = 243/245 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   gcagtgagagcaccgtgtgtgcagtcaatcttcctccccgcctttagcaagggatctctg 60
           |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 445 gcagtgagagcaccgtgtgtgcagtcaatcttcctccccgccttcagcaagggatctctg 386

                                                                       
Query: 61  gctgtttagtagcattgcagataaatagcctttaatgtggccagcctattctttgctcag 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 gctgtttagtagcattgcagataaatagcctttaatgtggccagcctattctttgctcag 326

                                                                       
Query: 121 gatttatgcacaatggatgtgacatgctgtccttgtggagcaagcattctaaagagctga 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 gatttatgcacaatggatgtgacatgctgtccttgtggagcaagcattctaaagagctga 266

                                                                       
Query: 181 cgctcctttatacaagtgatcaggcaagcatcgtacgcagagatatcacatcctaagggt 240
           || |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 cgttcctttatacaagtgatcaggcaagcatcgtacgcagagatatcacatcctaagggt 206

                
Query: 241 aatgt 245
           |||||
Sbjct: 205 aatgt 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: 10
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: 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)
Query= MSMg01no080_n20.g1 MSMg01no080_n20.g1 CHROMAT_FILE:
MSMg01no080_n20.g1 PHD_FILE: MSMg01no080_n20.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:29:54 2005
         (323 letters)



>mm_chr3_49969072_49969794
          Length = 723

 Score =  609 bits (315), Expect = e-179
 Identities = 321/323 (99%)
 Strand = Plus / Plus

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

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

                                                                       
Query: 121 ttaaataaatattataggaaaatatacaagctgtagaaaactctgcatacagcctggaca 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 ttaaataaatattataggaaaatatacaagctgtagaaaactctgcatacagcctggaca 380

                                                                       
Query: 181 gatgccattagagttcagagctctttcagaggaaccaggttcggttctcagcagccacag 240
           ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct: 381 gatgccattagagttcagagctctttcagaggatccaggttcggttctcagcagccacag 440

                                                                       
Query: 241 ggcatcacacacttaattattactccatctgaagagtgtctgtgtcctttcttttcactc 300
           |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 ggcagcacacacttaattattactccatctgaagagtgtctgtgtcctttcttttcactc 500

                                  
Query: 301 tgcagacactcccagacatagga 323
           |||||||||||||||||||||||
Sbjct: 501 tgcagacactcccagacatagga 523


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: 14
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: 323
Length of database: 723
Length adjustment: 9
Effective length of query: 314
Effective length of database: 714
Effective search space:   224196
Effective search space used:   224196
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)