BAC Information

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BAC

Clone NameMSMg01-210N09
Chromosome4 (Build37)
Map Location 109,112,409 - 109,239,856
singlet/doubletdoublet
Overlap gene4922503N01Rik, Rnf11, 4930522H14Rik
Upstream geneLOC665728, Zcchc11, LOC100040110, Prpf38a, Orc1l, Cc2d1b, Zfyve9, LOC100040326, 3110021N24Rik, Btf3l4, Txndc12, Kti12, Rab3b, Nrd1, Osbpl9, Calr4, Eps15, LOC666144
Downstream geneCdkn2c, LOC100040307, Faf1, Dmrta2, Elavl4
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-210N09.T7 (MSMg01no210_n09.b1)MSMg01-210N09.TJ (MSMg01no210_n09.g1)
ACCAG392802AG392803
length830835
length of high quality
(start - end)		269 (107 - 375)241 (137 - 377)
definitionCHROMAT_FILE: MSMg01no210_n09.b1 PHD_FILE: MSMg01no210_n09.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:35:31 2005CHROMAT_FILE: MSMg01no210_n09.g1 PHD_FILE: MSMg01no210_n09.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:35:32 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(109,239,592 - 109,239,856)(109,112,409 - 109,112,649)
sequence
GCCGTCCCGCGGGGGGCCGGGGGGCAGCGGGGGGGCGGGCCCCNNNNGNN
CNNNNNNNTTCTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXCGCGGAATTCCACGAGAAAACACGGCCATTTCCTGAGGGCCTAA
TTCACACTCTGCCTTCTCTGAGCCTTCCAACACCCTCTAAACATACAGCG
CACAACTCTACTTCACGCGTGTGCTCGCCCTGAACCTGGGCAGAAGCATG
GAGCAGCATCCATCCTGTACTTTAAAAGACAATTGTCACCTTATCCTGTT
CTGTCCCTGACTCAAGACTGACGTCAGACATTACAGCAAACAAAATTATC
CAGTTTTTCTGCCCAGTACCCAGCCTAACATCCAAGACAGGCTTAATGTT
TAATAAATGTTCATGATGTGTTTGTGCCCCCCCCCCCCCCCTGTTTCGGT
TACTTAGCGCGCGGGGTGGGGGTTTCCCCCCCTAAACTAAAAAAGGTAAC
TGTTGCTGGGGTTGCGCCTTATTAATTAACCTCCTTTTTATCCTTAACCT
TCTTCTATTATTTTCGAATGCGCTGGGGGTTGGACTATATCGCGATTTCC
GCCCTCCCCGTTATTTCCCTCGACTGGTCCGCCGGCTGTCCTCTATGGTT
CACTTCCCATACAATACTTTTATTTTTTAACATTAAATATACTTTGTCTC
AGTTGTACCTTCCTTTATTTTCTTCCTCTTAATCTCCTTACCACTTTCTC
CCACTTCTTATATTTCACTTTTCGATTTATTCGAATCGAGTAAACCCACC
ACTCTAAAAAATTAGTATAGTTTTTGCGGC

TCCACTGGGGGTGGGCTCGGGGGTTGGCCGTGTTCATCTANTNNNNTCCN
NNNNNNNNTCTCCATGCTAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTCCCACAGCCCTTG
AGAGGAAGGAGGTAATACAATCTATATTTTTGAGATTAGAAAACAGACCC
TGAGTGGTTCTGCAATGAATACGCAGCAAGGAATCTGGGGTGGCCTCACC
CATCAGTTGTTTCCTGAGCCCATACAGCTCGGGGTCTGAGATCCCAGCCA
CACCCAATGGCCAGGCAGCTGGTAGTGGGTGAGGCTCCAGTCAAGGCATG
CCCAGCTGTGTGACTTTTATTCTATCCTTGTATCAGCTGAGGAGGCCACA
GTTCAGGAGGCTGGTTTNAATTATTCCCNNGGCCCGNCCCGCATGTGTAT
TTCTNTTTTTTGTCGGGGTGTTGTTCCCCCAAAAAAAAAAAAAAATTTTG
CGGTTTTGGGGTGCCCTTCCCCTTACGTTATGTCCTATCCTCTTTTTTTA
CCTTTTAGATTTTCTCCTCCTTTTCCCTTTTCTATGTTTGTTCCGCCTTT
CATTATAATTTTTTTCTCGCGTTCTTCCTTCTATATTACACATTTTCCCT
CTCTTTCTTCCATTAGTTAACCTCCACTTTCTTCACCCCCACGGTCCATT
CCTGTCCTAAATTTCTTCCCTACTTTTCATCCCGCTCTTTACCCGCTACA
CCCCCTCTTTCTCTTTACCTTTCCCCAGCGTTTTGGCAGTTTCTCTTTTT
GAGCGCCTATGTCGTGCCCGCCATTCTTTCTCCTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no210_n09.b1 MSMg01no210_n09.b1 CHROMAT_FILE:
MSMg01no210_n09.b1 PHD_FILE: MSMg01no210_n09.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:35:31 2005
         (269 letters)



>mm_chr4_109239388_109240056
          Length = 669

 Score =  474 bits (245), Expect = e-138
 Identities = 260/265 (98%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattccacgagaaaacacggccatttcctgagggcctaattcacactctgccttctctg 64
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 469 gaattccacgagaaaacacagccatttcctgagggcctaattcacactctgccttctctg 410

                                                                       
Query: 65  agccttccaacaccctctaaacatacagcgcacaactctacttcacgcgtgtgctcgccc 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 409 agccttccaacaccctctaaacatacagcgcacaactctacttcacgcgtgtgctcgtcc 350

                                                                       
Query: 125 tgaacctgggcagaagcatggagcagcatccatcctgtactttaaaagacaattgtcacc 184
           |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct: 349 tgaacctgggcagaagcatggagcagtatccatcctgtactttaaaagacaattgtcacc 290

                                                                       
Query: 185 ttatcctgttctgtccctgactcaagactgacgtcagacattacagcaaacaaaattatc 244
           ||||||||||||||||||||||||||||||| |||||||||||||||||| |||||||||
Sbjct: 289 ttatcctgttctgtccctgactcaagactgaggtcagacattacagcaaaaaaaattatc 230

                                    
Query: 245 cagtttttctgcccagtacccagcc 269
           |||||||||||||||||||||||||
Sbjct: 229 cagtttttctgcccagtacccagcc 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: 11
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: 269
Length of database: 669
Length adjustment: 9
Effective length of query: 260
Effective length of database: 660
Effective search space:   171600
Effective search space used:   171600
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= MSMg01no210_n09.g1 MSMg01no210_n09.g1 CHROMAT_FILE:
MSMg01no210_n09.g1 PHD_FILE: MSMg01no210_n09.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:35:32 2005
         (241 letters)



>mm_chr4_109112209_109112849
          Length = 641

 Score =  435 bits (225), Expect = e-126
 Identities = 237/241 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   tcccacagcccttgagaggaaggaggtaatacaatctatatttttgagattagaaaacag 60
           |||||||||||||||||||||||||||| ||||||||||| |||||||||||||||||||
Sbjct: 201 tcccacagcccttgagaggaaggaggtagtacaatctatacttttgagattagaaaacag 260

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

                                                                       
Query: 121 ttgtttcctgagcccatacagctcggggtctgagatcccagccacacccaatggccaggc 180
           ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 321 ttgtttcctgagcccatacagctcggggtctgagatcccagtcacacccaatggccaggc 380

                                                                       
Query: 181 agctggtagtgggtgaggctccagtcaaggcatgcccagctgtgtgacttttattctatc 240
           ||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 381 agctggtagtgggtgaggctccagtcaaggcatgcccagctgtgtgaattttattctatc 440

            
Query: 241 c 241
           |
Sbjct: 441 c 441


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: 9
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: 241
Length of database: 641
Length adjustment: 9
Effective length of query: 232
Effective length of database: 632
Effective search space:   146624
Effective search space used:   146624
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)


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