BAC Information

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BAC

Clone NameMSMg01-394N06
Chromosome1 (Build37)
Map Location 43,565,524 - 43,773,462
singlet/doubletdoublet
Overlap geneNck2
Upstream gene2610017I09Rik, Pou3f3, Mrps9, Gpr45, LOC100041588, Tgfbrap1, AI597479, Fhl2, EG666642, EG666644, LOC100041644
Downstream gene1500015O10Rik, Uxs1, LOC666676, LOC100042303, EG666690, Tpp2, A530098C11Rik, EG666713, 1700029F09Rik, Kdelc1, Bivm, Ercc5, 4832428D23Rik, LOC435619, Txn-ps1, Gulp1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-394N06.T7 (MSMg01no394_n06.b1)MSMg01-394N06.TJ (MSMg01no394_n06.g1)
ACCAG495792AG495793
length815786
length of high quality
(start - end)
225 (51 - 275)339 (80 - 418)
definitionCHROMAT_FILE: MSMg01no394_n06.b1 PHD_FILE: MSMg01no394_n06.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:40:21 2005CHROMAT_FILE: MSMg01no394_n06.g1 PHD_FILE: MSMg01no394_n06.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:40:21 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(43,773,241 - 43,773,462)(43,565,524 - 43,565,855)
sequence
CCCCCTTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTCCATAGATC
CGCGGAATTCATCTTCTCTCTCTCTTTGGCATACATCCTTATTCCAGGAT
TTAACCACCTGTTCCCATTTCTACACTGAATGATGCATTTGTAGTAGTTG
CCATTGCCTTCCTGTTTTCATTATTACTAGGGCATTTCCCCACTTAATTC
TGTGAGAATTTGTAAGGTATCTAGATGTGAAGGACATTGTTAGGGAGCCC
AAGATGAATGAGCCTTCTGTCCTGCCCTGAGCCAACGCACATTCTAGATT
TCAGATGCATTTTACCATGTGCTCTTTTTCTGACAATGATGGCAACACAT
GTCACATAGCCACAGAATTGCATTTTTTCCAGAGCCGGTAATGGACTGGT
GGATGATAGCTGAATCCCACCCCCCCCCCCGCCCATATGTTTGAATTTCT
GTCTCTTACCCAGTGTTGTTATTTTATCACTTTCGTGTCACTCCTGTTCC
TCCCCTCCCCTTTCTCTGTGTTCTTTACTCTCACTTTCTCCCTCCCCATC
CTCCTTCTTCGTTTCTTCCCCTCCTTTTTTCTCCCCCCTTTCTCCTCTCT
TTTCCCCTCCTCCTTTCCCCCTCTTTCTATCTCCTTCTTTTTTCTCCCTT
TTTCCTTCTCCTTCCCCTTTCTCTCCCCTTTCCCCTTTCTTTTCTCTTCC
CTTTCTTTTTTTTTCCCAACCCCTCTCCTTCTTTCTTTTTTTACTACCTT
CTTTTTTTCCCTCTCTCCCTCCATTTCTCCCTCCATTGTTTCTCTCAAAC
TTCCTTTATTACTTG
NNTTCCGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXATTTTTAAATCAAAATTTATG
AACTTGCCTTGTAACACATCATGATAGTCCTGCTTGAATTATCACTTCCT
ATTTGAGTAAAATAGAATTCGTTTTTTCTGTGCGGCTTTTACCATTTTGG
GGACATAATCATCCTAGGGATGAATTAATAGATCTCCTCCAAGTGAGCTG
CCAGGACAGATGCCCTCTGGGTTTGAAATGATTAAAGATGCCAATGAACT
CTCAGGGGAATCTGCAGAGTGCACCTTATTTCCCTTGAAAATGCCAGAGG
AAACCAGAAGTGTTTGCCCAAGTGTGTGCACAGTGACTGCACTGTCAATT
CCACAAGCAGCATGGAGTGCGGCCACCTGTGTTAGCTGCTTGCCTCTTAA
CTACCTTGTAGCTTTGAGGTGCGAGTCTCAGATTTCCCGCCATGCCCATC
CGAATGCTTTTAGCCTTTAGATTCGTTCATTCCGTTGCCGTCCCTTGCCT
TTAGCGTACGCCCCACACTGTCTTATGGCTCTATGTCTCGTGTTGTCCTT
CCCCTACTTATTCCCTTCTCGTCTGCCTCTTAAATTCCCCCTCCTCTTCT
TTCTCTACGCTCTCTTTTTTCTAATTATATCCTTCCCCCCCCCCCGCTTA
CTCTTTTTTCCCTCTCTTCCTATCATTCCCTTTTTCGCCTTCCGCCTCTA
TCTCTTTCCTATTTCCTTCTTCCCTTTCTTCCTTCN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no394_n06.b1 MSMg01no394_n06.b1 CHROMAT_FILE:
MSMg01no394_n06.b1 PHD_FILE: MSMg01no394_n06.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:40:21 2005
         (225 letters)



>mm_chr1_43773037_43773662
          Length = 626

 Score =  383 bits (198), Expect = e-111
 Identities = 216/222 (97%), Gaps = 1/222 (0%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcatcttctctctctctttggc-atacatccttattccaggatttaaccacctgtt 63
           ||||||||||| | ||| |||||||| |||||||||||||||||||||||||||||||||
Sbjct: 426 gaattcatcttttatctttctttggcaatacatccttattccaggatttaaccacctgtt 367

                                                                       
Query: 64  cccatttctacactgaatgatgcatttgtagtagttgccattgccttcctgttttcatta 123
           |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 366 cccatttctacactgaatgatgcatttgtagtggttgccattgccttcctgttttcatta 307

                                                                       
Query: 124 ttactagggcatttccccacttaattctgtgagaatttgtaaggtatctagatgtgaagg 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 306 ttactagggcatttccccacttaattctgtgagaatttgtaaggtatctagatgtgaagg 247

                                                     
Query: 184 acattgttagggagcccaagatgaatgagccttctgtcctgc 225
           ||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 246 acattgttagggaacccaagatgaatgagccttctgtcctgc 205


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: 225
Length of database: 626
Length adjustment: 9
Effective length of query: 216
Effective length of database: 617
Effective search space:   133272
Effective search space used:   133272
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= MSMg01no394_n06.g1 MSMg01no394_n06.g1 CHROMAT_FILE:
MSMg01no394_n06.g1 PHD_FILE: MSMg01no394_n06.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:40:21 2005
         (339 letters)



>mm_chr1_43565324_43566062
          Length = 739

 Score =  603 bits (312), Expect = e-177
 Identities = 327/332 (98%)
 Strand = Plus / Plus

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

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

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

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

                                                                       
Query: 241 tgcaccttatttcccttgaaaatgccagaggaaaccagaagtgtttgcccaagtgtgtgc 300
           ||||||  | ||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 441 tgcaccagagttcccttgaaaatgccagaggaaaccagaagtgtttgtccaagtgtgtgc 500

                                           
Query: 301 acagtgactgcactgtcaattccacaagcagc 332
           ||||||||||||||| ||||||||||||||||
Sbjct: 501 acagtgactgcactgccaattccacaagcagc 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: 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: 339
Length of database: 739
Length adjustment: 9
Effective length of query: 330
Effective length of database: 730
Effective search space:   240900
Effective search space used:   240900
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)