BAC Information

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BAC

Clone NameMSMg01-312B11
Chromosome18 (Build37)
Map Location 53,066,344 - 53,220,417
singlet/doubletdoublet
Overlap geneSncaip, LOC667317, LOC100042430
Upstream geneFtmt, Srfbp1, Lox, Zfp474, 1700034E13Rik, Gykl1, A730036E13Rik
Downstream geneSnx2, Gm1859, Snx24, Ppic, Prdm6, Ccdc100, Csnk1g3, EG433184, LOC667360
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-312B11.T7 (MSMg01no312_b11.b1)MSMg01-312B11.TJ (MSMg01no312_b11.g1)
ACCAG434405AG434406
length736752
length of high quality
(start - end)
299 (52 - 350)179 (70 - 248)
definitionCHROMAT_FILE: MSMg01no312_b11.b1 PHD_FILE: MSMg01no312_b11.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:53:05 2005CHROMAT_FILE: MSMg01no312_b11.g1 PHD_FILE: MSMg01no312_b11.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:53:05 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(53,066,344 - 53,066,642)(53,220,239 - 53,220,417)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XAAAAAATCCCTCTAGAGAAGAGGGAACTGAAGCTAGCCAGACTGAGGCA
GCTGATGCAGAGATCGTTGAGTGAATCTGACACGGACTCAAACAATTCTG
AAGATCCCAAAAATACTCCTGTGAAAAGAGCAGACAGGCCGAGGCCACAG
CCCATTGTAGAAAGCGTGGAGAATGTAGACAGCGCAGAAAGCTTACACCT
GATGATAAAGAAACACTCTCTGGCATCAGGACGCAGGTTTCCTTTTGGTA
TGAAAGCCTCCAAATCCCTGTATGGACACAGCCCATCTCCCACCTCAGAG
AGCAGTGATTTTTTTTTTGGACTCCCCCCCCCCAGGTCTGGGGATGACTC
CTCCAACCCAGCCCCCCACCCACACACAATCAAACCAGACCCGACGGTAC
CGCTGCCCAGAAAGTTGCCACAAGCCCCAAGAGTGCCCTCAAGTCTCCAT
CATCCAAGTGCCGGACATCCCTTAACTCAAAACTCATAGTGACCTTTGAG
GAACCTGTCGTACAATTGGAACACACTGTTCTTGAACTAAATGCAGAATA
AGTAATAGATAATGGTTGGTTTTCCCCTATTATTATTTTATCCGGAGAAC
ACACGAAAAGGCCTTTTCTTAACCTTCCGATCTCTCCTGCAAATTTTAAT
CGCATCCTTTAACTCGCATTAAAACTACTCGCTAAG
ACTGTGCGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXCAATGTGGGCTCAGGGTAAGCAGGCCTCAGA
CCATGCCAGGAAGAATCAGTGGTGACAGCCAGAGTCTAGTGTATCAACAG
AGTGACTAATTAAAGGGATTGAGGTTGCTCTTGGAGATGAGCCTTATTAC
TCGTAGAAATATGTTTAACACACACACACACACACACACACACACACACT
CTCGAGGTTGGAATGGGTGGATATATCATAGTTGATTTTTAAACCATACA
TAGTGAATCTTCGTGTCATATAATCAACTATATCAACACTTCAATTAACA
AGTATTTGAATGAGTTCCCCATTGCAAGCCCGGAGTANATTTTAATTAGT
CATTCCTTGTTGCCCCCCCCCATAAAAAAAAAAAAAGAGATCTGGGTATG
TATACGTGTTCAGAAATGTCATGTCATTAACAACAAGATCATATGGTGCT
GACCTTCTTAGTATAGCATCCATTGTGTGTGTGTGCGTTGTGTGTGCTTG
TGCGTGTGTGAGTTTTTCGATACCCCCTGCTTATATCTATTTCTATTGTC
CTTTACATCCCCCAATTATCCCCCTTACTTCTCCTATTTATCTATTTACT
TCATTATTCTTTATTTTCCTTGATGCACCTCTTACCCCACTCCTTNCTAC
TTTTCCCCCTTTTAATTTCTTATCTTTATATTCATATTTGCCTCTTTCAC
TT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no312_b11.b1 MSMg01no312_b11.b1 CHROMAT_FILE:
MSMg01no312_b11.b1 PHD_FILE: MSMg01no312_b11.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:53:05 2005
         (299 letters)



>mm_chr18_53066144_53066842
          Length = 699

 Score =  563 bits (291), Expect = e-165
 Identities = 297/299 (99%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  gatcgttgagtgaatctgacacggactcaaacaattctgaagatcccaaaaatactcctg 120
           |||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||
Sbjct: 261 gatcgttgagtgaatctgacacggactcaaacaactctgaagatcccaaaaatactcctg 320

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

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

                                                                      
Query: 241 cttttggtatgaaagcctccaaatccctgtatggacacagcccatctcccacctcagag 299
           ||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 441 cttttggtatgaaagcctccaaatccctggatggacacagcccatctcccacctcagag 499


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: 12
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: 299
Length of database: 699
Length adjustment: 9
Effective length of query: 290
Effective length of database: 690
Effective search space:   200100
Effective search space used:   200100
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= MSMg01no312_b11.g1 MSMg01no312_b11.g1 CHROMAT_FILE:
MSMg01no312_b11.g1 PHD_FILE: MSMg01no312_b11.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:53:05 2005
         (179 letters)



>mm_chr18_53220070_53220648
          Length = 579

 Score =  339 bits (175), Expect = 8e-98
 Identities = 178/179 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   caatgtgggctcagggtaagcaggcctcagaccatgccaggaagaatcagtggtgacagc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 348 caatgtgggctcagggtaagcaggcctcagaccatgccaggaagaatcagtggtgacagc 289

                                                                       
Query: 61  cagagtctagtgtatcaacagagtgactaattaaagggattgaggttgctcttggagatg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 288 cagagtctagtgtatcaacagagtgactaattaaagggattgaggttgctcttggagatg 229

                                                                      
Query: 121 agccttattactcgtagaaatatgtttaacacacacacacacacacacacacacacaca 179
           |||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 228 agccttattactcgtaaaaatatgtttaacacacacacacacacacacacacacacaca 170


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: 30
Number of extensions: 4
Number of successful extensions: 4
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3
Number of HSP's successfully gapped: 1
Length of query: 179
Length of database: 579
Length adjustment: 8
Effective length of query: 171
Effective length of database: 571
Effective search space:    97641
Effective search space used:    97641
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)