BAC Information

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BAC

Clone NameMSMg01-334D12
Chromosome3 (Build37)
Map Location 25,463,798 - 25,701,434
singlet/doubletdoublet
Overlap geneNlgn1, LOC621017
Upstream geneEG635702, LOC100039592
Downstream geneLOC229152, Spata16
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-334D12.T7 (MSMg01no334_d12.b1)MSMg01-334D12.TJ (MSMg01no334_d12.g1)
ACCAG449769AG449770
length715793
length of high quality
(start - end)
380 (64 - 443)235 (63 - 297)
definitionCHROMAT_FILE: MSMg01no334_d12.b1 PHD_FILE: MSMg01no334_d12.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:21:34 2005CHROMAT_FILE: MSMg01no334_d12.g1 PHD_FILE: MSMg01no334_d12.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:21:34 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(25,463,798 - 25,464,173)(25,701,200 - 25,701,434)
sequence
XXXXXXXXXXXXXXXXXXXXXXXTCGGAACGGAGGCGCGGAATTCTGTGT
TTTCATAAAAAGATCAAGGGAAAAGGCAAGCCTGATGCAAACAGGTCAAG
ATCAAAGATTACCAGGTAGACACAAGCTGATGCTGTTAACCTATGGTTGC
TTGAGAAGTGCGTGAGGTGACTGAAAATCTATGACACCCAGAAATTGCAG
CACACTTAAGGACGCTTGATAATGGCATTCTCCCATAGCATCGGGGACAG
GAGTCAAGTCTGGTAAATCCATGGCTAAAGAGTAGAGCAATCAGTTCATG
TCCTTGTTTGACACCTTTTGCAAGTACTCCTGTGGCACTCCCACCCCAGG
GGCTGACTGCACGTCTCTCCCAGTCTTAGCAGAACAGCCTTGTACCTGGG
ATGTATTCAATCACTCCTTGGATTGAATTTCCTTGTTGACATCACATAAA
ATAATCTCATTACTAGATACAGAAAGGAATCACTTTGCTGACACCCCATG
CAGTAGCTGTGTCTCCCCTGAACATTGTTAACCCCACTGTGACTGCTGGA
GCACCCTGCACTCTGGCAATTGCCTACTAAATGTTTATTGATGACTAATC
CACAAGGTTCCTCGACCTCTTACCCGATTCTATTACAGACCGAAAAAAAA
TCCACATATTTTTCCTGACAATGCCCGACTTATTTTTACACTTAATCCGT
TTTGCCTGACCCATN
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTATCAAGA
AGAAAATTCAGAAGATGTACTTAAGTTTCAATATCATTTGTTGATTTGCA
TTAAGCTAGTTTTCCAACTTACTTTGTAAGATATTTAAATTTTGAGGATT
TAAATGAACTAAATCTAAAAATTCTCCAAAGCAATTTGAATTCACATGAC
ATTCACAGAAATGTATTAGATTTCAGATGGAAATTAATACACATATACAT
ATATATTATAATATTATATATACTTTTGCATTATATTTAATGGTATAACA
TATTTTATATTTGCATAAAATTATGCTGGCATAATATATATTGGTGTTTT
ACCTAATACACCGCCTAGCATATCGTTAACGTATATTATTATCCCTATAT
TACCATGTGCAGATGGGGTTAATAGTTTTCTCTCCATATACGAACTAATG
CAACTGCTATTCTCACATTTTCCACCTCACCTCTATTACCTTCTTTTGCT
CCCCTTACACCCTATCATATATCTATTTTTTTTTTTGTCCACAACATCGC
CCCGTTCTCGACCATTCCCCATCTCCTATTCGCCTCCTCTTTTCTTTATT
TTTTCCGTCCATTTTCCCTTATTCCTCCCTTCTCTCCCCTCTGAGTTCTT
CTCTTTTTTCTCCCCCTCCCCTGCATTTCACTATACCATTCTATTCCCCT
TCCCAATATAATATCTTAACTCCTCCGCCCTCATTTACTCTGCGCCCTTT
ACCGCCCTTAACTATCCCCTCTACCCCTCTCTTGTTACTTTTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no334_d12.b1 MSMg01no334_d12.b1 CHROMAT_FILE:
MSMg01no334_d12.b1 PHD_FILE: MSMg01no334_d12.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:21:34 2005
         (380 letters)



>mm_chr3_25463598_25464377
          Length = 780

 Score =  688 bits (356), Expect = 0.0
 Identities = 371/376 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   tcaagggaaaaggcaagcctgatgcaaacaggtcaagatcaaagattaccaggtagacac 60
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 201 tcaagggaaaaggcaagcctgatgcaaacaggtcaagatcaaagattaccaggtaggcac 260

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

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

                                                                       
Query: 181 gggacaggagtcaagtctggtaaatccatggctaaagagtagagcaatcagttcatgtcc 240
           |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 gggacaggagtcgagtctggtaaatccatggctaaagagtagagcaatcagttcatgtcc 440

                                                                       
Query: 241 ttgtttgacaccttttgcaagtactcctgtggcactcccaccccaggggctgactgcacg 300
           |||  ||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 441 ttgggtgacaccttttgcaagtactcctgtggcactcccaccccagaggctgactgcacg 500

                                                                       
Query: 301 tctctcccagtcttagcagaacagccttgtacctgggatgtattcaatcactccttggat 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 tctctcccagtcttagcagaacagccttgtacctgggatgtattcaatcactccttggat 560

                           
Query: 361 tgaatttccttgttga 376
           ||||||||||||||||
Sbjct: 561 tgaatttccttgttga 576


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: 16
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: 380
Length of database: 780
Length adjustment: 9
Effective length of query: 371
Effective length of database: 771
Effective search space:   286041
Effective search space used:   286041
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= MSMg01no334_d12.g1 MSMg01no334_d12.g1 CHROMAT_FILE:
MSMg01no334_d12.g1 PHD_FILE: MSMg01no334_d12.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:21:34 2005
         (235 letters)



>mm_chr3_25701049_25701683
          Length = 635

 Score =  431 bits (223), Expect = e-125
 Identities = 232/235 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   agatgtacttaagtttcaatatcatttgttgatttgcattaagctagttttccaacttac 60
           ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 386 agatgtacttaagtttcaatatcatttgttgatttgcattaagttagttttccaacttac 327

                                                                       
Query: 61  tttgtaagatatttaaattttgaggatttaaatgaactaaatctaaaaattctccaaagc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 326 tttgtaagatatttaaattttgaggatttaaatgaactaaatctaaaaattctccaaagc 267

                                                                       
Query: 121 aatttgaattcacatgacattcacagaaatgtattagatttcagatggaaattaatacac 180
           | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 266 attttgaattcacatgacattcacagaaatgtattagatttcagatggaaattaatacac 207

                                                                  
Query: 181 atatacatatatattataatattatatatacttttgcattatatttaatggtata 235
           |||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 206 atatacatatatattataatattatatatacttttgtattatatttaatggtata 152


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: 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: 235
Length of database: 635
Length adjustment: 9
Effective length of query: 226
Effective length of database: 626
Effective search space:   141476
Effective search space used:   141476
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)