BAC Information

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BAC

Clone NameMSMg01-236A11
Chromosome17 (Build37)
Map Location 27,376,946 - 27,514,634
singlet/doubletdoublet
Overlap geneLOC100042713, ENSMUSG00000073430
Upstream geneItfg3, Luc7l, EG383229, EG240055, C230078M08Rik, Dusp1, EG666668, Ergic1, Atp6v0e, A930001N09Rik, Bnip1, Nkx2-5, Kifc1, Phf1, Cuta, Syngap1, Zbtb9, Bak1, Ggnbp1, Itpr3, 2900010M23Rik, Ihpk3, Lemd2
Downstream geneGrm4, LOC677010, Hmga1, AI413582, Nudt3, Rps10, Pacsin1, Spdef, LOC100042744, D17Wsu92e, EG666682, Snrpc, F830021D11Rik, Taf11, Anks1, Tcp11, 4930526A20Rik, Scube3, LOC100042764, Zfp523, Def6, Ppard, 1810013A23Rik, Fance, Rpl10a, Tead3, Tulp1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-236A11.T7 (MSMg01no236_a11.b1)MSMg01-236A11.TJ (MSMg01no236_a11.g1)
ACCAG401411AG401412
length732811
length of high quality
(start - end)
526 (122 - 647)263 (173 - 435)
definitionCHROMAT_FILE: MSMg01no236_a11.b1 PHD_FILE: MSMg01no236_a11.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:53:29 2005CHROMAT_FILE: MSMg01no236_a11.g1 PHD_FILE: MSMg01no236_a11.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:53:29 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(27,376,946 - 27,377,471)(27,514,372 - 27,514,634)
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCTAACTTCCCTTAAGGCCTCTTTCTTTGCAACTCCAAACTTATTCC
TAACAGATTACACTACATCTTCTTCCCTTCTGGGCCTCCCGGATCTTCTG
GATTGAGCATCCAGACTGTGCTAGCCCGAGAGGCCGGGCCGGGGAAGCTT
TAACTATCTGCACATCGCGCAGGCCTGCCAGAGCATGTTTCCAACAGAAC
CCCAGCAGCTCCACCTGGCTGGATCTCTGGTCTGGATGTGGACCAATCAG
CTGCAGCCAAGAGGCTGGATCAGAGATACAGCCTGTGGACAAAGAGGGAC
CAGATCTTTTAGGTCCTCCCCTCCAGGCCCAGCTTTATACAAGCTTGTTC
TCCTCTTTCCCACTGTCCCTAACCCAGGACCACATAACCTGAGGAAAGTT
GTCCCTTCCTCCTCCTGGTCCCATTTGCTTGTACATCCTCCACAGCCTTG
TTTACTGTTTGTGAGTCAGTGGTTGCCTACAGCCTCAAACTCACCATAGA
GTAGAAGATGCTTTGAACACTTGATCCTCCTGCCTCCACCCCCAAACGCT
GGGATTACAGGGTGTGTTACCACATCTGGTCCATTTGGTTTTTAAAACAG
GGTCTTGGCTATGCAGCCCTAACTGCCTTAGCTCAAGGTCCTCCTACGTC
TGCCCTCTGGATGCTGTGATGAGAGGCTTGTG
TTTCTTTTTCTTTTTCTTTATTTCTTTTCTTTCCCCTTTTTTNNTTACCC
TATGATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXTTTTTCTCACGGAATTCAATCCTGGGTCATGACAGCCAATTT
CTCAGACACAGGAAAAATGCCGCCACAGAACAAGGAAAACATGATTATGT
TAGTAACCAACAGCTGCTGCCTGGAGTTCAGGGCCCTGGCCTTGGGACCG
GCATGGAACTGAAGTCTCTATTCTCACAGAGGAAGAGCCACCAGCTCCGA
GAGCATCGGTTTCCAGACAGGGCCTCTGGAGCTCACTAGGCCTTGTTCTC
AAATAGAGTAACAGTCTATAGCAATACTGTGGGGCAGGGAGCAGAGGGGA
TTTCATATACCTGTGGCTTGCTGCTCTTGCAGAGGACCCTGGTTCTAGTC
TCAGCACCACAGAGTGTATCACAACTGTGTGTAACTCCAGTTCCAGTGGA
TCTGGAGCCCTCTTCTGGTCTTCATAGGTACTACATGTACAGTATAGAAA
GCAGCCATGCTCAAGATTCAAAAGAAATCTATATTTTTTAGGATGCACCT
TCTACATGCACCTGTAACCTTGTTTAGTCTATTCCAGACTAGTGTGACTT
AACCATTACAAGTTTTGTTGTTTTTATGTAAGAACCGTATGGGCATTTCA
CTATTAAAGCCTTTACCCCCTTTTATTCTTTCTGCTCCCCTCCCTTTTAC
TTTTCCCCCTCGATATTATTCCTTCTTTATTCTACCCGCCGCAAACCTCT
ATATCTTTTTC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no236_a11.b1 MSMg01no236_a11.b1 CHROMAT_FILE:
MSMg01no236_a11.b1 PHD_FILE: MSMg01no236_a11.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:53:29 2005
         (526 letters)



>mm_chr17_27376746_27377671
          Length = 926

 Score =  994 bits (514), Expect = 0.0
 Identities = 523/526 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   cttcccttctgggcctcccggatcttctggattgagcatccagactgtgctagcccgaga 60
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 cttcccttctgggcctcccagatcttctggattgagcatccagactgtgctagcccgaga 260

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

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

                                                                       
Query: 181 tgcagccaagaggctggatcagagatacagcctgtggacaaagagggaccagatctttta 240
           |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 tgcagccaagaggcaggatcagagatacagcctgtggacaaagagggaccagatctttta 440

                                                                       
Query: 241 ggtcctcccctccaggcccagctttatacaagcttgttctcctctttcccactgtcccta 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 ggtcctcccctccaggcccagctttatacaagcttgttctcctctttcccactgtcccta 500

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

                                                                       
Query: 361 tacatcctccacagccttgtttactgtttgtgagtcagtggttgcctacagcctcaaact 420
           |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 tacatcctccacagccttatttactgtttgtgagtcagtggttgcctacagcctcaaact 620

                                                                       
Query: 421 caccatagagtagaagatgctttgaacacttgatcctcctgcctccacccccaaacgctg 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 caccatagagtagaagatgctttgaacacttgatcctcctgcctccacccccaaacgctg 680

                                                         
Query: 481 ggattacagggtgtgttaccacatctggtccatttggtttttaaaa 526
           ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 ggattacagggtgtgttaccacatctggtccatttggtttttaaaa 726


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: 26
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: 526
Length of database: 926
Length adjustment: 10
Effective length of query: 516
Effective length of database: 916
Effective search space:   472656
Effective search space used:   472656
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= MSMg01no236_a11.g1 MSMg01no236_a11.g1 CHROMAT_FILE:
MSMg01no236_a11.g1 PHD_FILE: MSMg01no236_a11.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:53:29 2005
         (263 letters)



>mm_chr17_27514172_27514834
          Length = 663

 Score =  462 bits (239), Expect = e-135
 Identities = 257/263 (97%)
 Strand = Plus / Minus

                                                                       
Query: 1   ccacagaacaaggaaaacatgattatgttagtaaccaacagctgctgcctggagttcagg 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 463 ccacagaacaaggaaaacatgattatgttagtaaccaacagctgctgcctggagttcagg 404

                                                                       
Query: 61  gccctggccttgggaccggcatggaactgaagtctctattctcacagaggaagagccacc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 403 gccctggccttgggaccggcatggaactgaagtctctattctcacagaggaagagccacc 344

                                                                       
Query: 121 agctccgagagcatcggtttccagacagggcctctggagctcactaggccttgttctcaa 180
           |||||| |||||||||||||||||||||||||||||||||||| |||||||||| |||||
Sbjct: 343 agctccaagagcatcggtttccagacagggcctctggagctcattaggccttgtgctcaa 284

                                                                       
Query: 181 atagagtaacagtctatagcaatactgtggggcagggagcagaggggatttcatatacct 240
           |||||||||||| ||| |||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 283 atagagtaacagcctagagcaatactgtggggcagggagcagaggggatttcatagacct 224

                                  
Query: 241 gtggcttgctgctcttgcagagg 263
           |||||||||||||||||||||||
Sbjct: 223 gtggcttgctgctcttgcagagg 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: 11
Number of extensions: 2
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: 263
Length of database: 663
Length adjustment: 9
Effective length of query: 254
Effective length of database: 654
Effective search space:   166116
Effective search space used:   166116
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)