BAC Information

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BAC

Clone NameMSMg01-336B11
Chromosome4 (Build37)
Map Location 87,817,156 - 87,999,959
singlet/doubletdoublet
Overlap geneBC057079
Upstream geneSlc24a2, Mllt3
Downstream genePtplad2, Ifnb1, OTTMUSG00000007655, Ifna14, Ifna9, Mrpl48-ps, Ifna12, C87499, Ifna13, LOC546834, OTTMUSG00000011275, Ifna2, Ifnab, LOC546835, Klhl9, LOC100040477, Ifnz, LOC100041062, EG545645, LOC668147, OTTMUSG00000011291, OTTMUSG00000011290, OTTMUSG00000011265, Ifnz, OTTMUSG00000011269, OTTMUSG00000011270, OTTMUSG00000011272, OTTMUSG00000011268, OTTMUSG00000011273, OTTMUSG00000011282, OTTMUSG00000011285, OTTMUSG00000011289, Ifna7, Ifna11, Ifna6, Ifna5, Ifna4, Ifna1, Ifne1, LOC100040617, Mtap, LOC625574, Cdkn2a, Cdkn2b
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-336B11.T7 (MSMg01no336_b11.b1)MSMg01-336B11.TJ (MSMg01no336_b11.g1)
ACCAG451194AG451195
length739736
length of high quality
(start - end)		526 (42 - 567)519 (71 - 589)
definitionCHROMAT_FILE: MSMg01no336_b11.b1 PHD_FILE: MSMg01no336_b11.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:24:04 2005CHROMAT_FILE: MSMg01no336_b11.g1 PHD_FILE: MSMg01no336_b11.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:24:04 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(87,999,438 - 87,999,959)(87,817,156 - 87,817,674)
sequence
TXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATT
CTGTGTATCCAGAGTTTCCATACCTGATAGTAGAGACCCGTAAAGATATA
TGGGATTCAAGATGCACTCAAGAGTACACAGAAAGCTTTCAGGAGAGCAT
AACCAGAAAGAGGGACTTCAGTTCCCAGCCTCTGGCTTGATCTGCCATGC
TCAAGGCCCATCTCATGCCCTGCATCATACTGTGATGACACCCATGAGGA
GGCAACTTAGTGTTTCTCTAGTTTCTGTTGCAAAACAAACAGCATAAGGG
AGTCCTGTGTGCAGAAGCCAACACACCAGCATCCTTCAGTCAGCACCTCA
GGCTGCTCTTACAGCTCCCAGGAGCCTAACAAGTTCAATAGATAATGCAT
TTCCCACCAGCTAAACCAACGCCTAGGGCTGCATGCTCTAGGGCTGCATG
CTTTGAGACCAGTCAAATTTCTGGAGGAAGGCTACTTTTGATTGGAAGGA
ATTTAAAGCTTTTGTTTTAATTAGGAATCTACAGGGAAAGTTTTTAAGCT
ATCTTTCCATATTGGCACATGTAGAACAGACAGAATTAGACNACGGTATA
ATTAGACACAGCCTGATTCATATTTTGACAAAATTGACTACTGTTCTTCC
TTTTGATATGGAAATGCGAAACATCCTCCATATTTAAAAGGGTTCCCCCT
GGGAAACCCTCCCCAGCCCCAGGAGGAAATCCCTTTAAA

ACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXTATACATTAACATCGTTGTGGAATTTAGGT
TGAGAACCTTAAGGTTGTTAACCTAGCACATGGGTTTGAGAACGAGGGTC
CGGAGAGAACATGGCCTATTCCAGGCCAACTGAATGTTGGAGGCAGAGGT
GGGCTTGCAGCCTTATTGCTTGTCTCCATCTTGGCTATTGTCTACCATGT
CTTCTGTAGTGGGAAGCACAAGTATAGAAGACGTCTGTGCGGATGGAAGT
TCTTTGTTTCATATCTTAAATATTTGTTTTCGCTTTGGTGTTTGGGCCTT
TTGTTTTATTTTCTTCCTGAGATAGCAATGAGTCATCACAGAACTCTGGG
AATGTGTGAGTATGAAATCAGAAAAAACATTAAGCTAGGGCAATTTTTAA
ATTGTAATTTATCATTAAGGAAGCAAAACAATATAATTCCACTTATATTT
TAAAAATGCTTATATCATAGTTAATTATTTTTTATAAATAGTAAATGAAA
ACACAGAAGTAAAATGAAAAAAGAATAAGGTTATATTTTGTTGATGCATG
CTACTTTTCNATATTTGTAACTTTATGTAGCCATGTTAACTGATTGCACA
TTTCTTAAAAGATGTGCTTGGTACACCCAGTCTTGTTGATAGGGCGATAA
AAGAAGGCTATGGGCTGGGGCTCCTTTGGATAAAGN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no336_b11.b1 MSMg01no336_b11.b1 CHROMAT_FILE:
MSMg01no336_b11.b1 PHD_FILE: MSMg01no336_b11.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:24:04 2005
         (526 letters)



>mm_chr4_87999234_88000159
          Length = 926

 Score =  924 bits (478), Expect = 0.0
 Identities = 511/522 (97%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattctgtgtatccagagtttccatacctgatagtagagacccgtaaagatatatggga 64
           ||||||||||||  |||||||||||||||||||||||||||||||||||||| |||||||
Sbjct: 726 gaattctgtgtaaacagagtttccatacctgatagtagagacccgtaaagatgtatggga 667

                                                                       
Query: 65  ttcaagatgcactcaagagtacacagaaagctttcaggagagcataaccagaaagaggga 124
           |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 666 ttcaagatgcactcaagagtacacagaaagctttcaggagagcacaaccagaaagaggga 607

                                                                       
Query: 125 cttcagttcccagcctctggcttgatctgccatgctcaaggcccatctcatgccctgcat 184
           ||||||||||||| |||||||| |||||||||||| ||||||||||||||||||||||||
Sbjct: 606 cttcagttcccagtctctggctcgatctgccatgcccaaggcccatctcatgccctgcat 547

                                                                       
Query: 185 catactgtgatgacacccatgaggaggcaacttagtgtttctctagtttctgttgcaaaa 244
           ||||||||||||||||||||||||| |||||||||||||| |||||||||||||||||||
Sbjct: 546 catactgtgatgacacccatgaggaagcaacttagtgtttttctagtttctgttgcaaaa 487

                                                                       
Query: 245 caaacagcataagggagtcctgtgtgcagaagccaacacaccagcatccttcagtcagca 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 486 caaacagcataagggagtcctgtgtgcagaagccaacacaccagcatccttcactcagca 427

                                                                       
Query: 305 cctcaggctgctcttacagctcccaggagcctaacaagttcaatagataatgcatttccc 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 426 cctcaggctgctcttacagctcccaggagcctaacaagttcaatagataatgcatttccc 367

                                                                       
Query: 365 accagctaaaccaacgcctagggctgcatgctctagggctgcatgctttgagaccagtca 424
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 366 accagctaaaccaacacctagggctgcatgctctagggctgcatgctttgagaccagtca 307

                                                                       
Query: 425 aatttctggaggaaggctacttttgattggaaggaatttaaagcttttgttttaattagg 484
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 306 aatttctggaggaaggctacttttgattggaaggaatttaaagcttttgttttaattagg 247

                                                     
Query: 485 aatctacagggaaagtttttaagctatctttccatattggca 526
           ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 246 aatctacagggaaagtttttaagctatctttccatattggca 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: 24
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= MSMg01no336_b11.g1 MSMg01no336_b11.g1 CHROMAT_FILE:
MSMg01no336_b11.g1 PHD_FILE: MSMg01no336_b11.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:24:04 2005
         (519 letters)



>mm_chr4_87816956_87817874
          Length = 919

 Score =  973 bits (503), Expect = 0.0
 Identities = 515/519 (99%)
 Strand = Plus / Plus

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

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

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

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

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

                                                                       
Query: 301 gatagcaatgagtcatcacagaactctgggaatgtgtgagtatgaaatcagaaaaaacat 360
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 gatagcaatgagttatcacagaactctgggaatgtgtgagtatgaaatcagaaaaaacat 560

                                                                       
Query: 361 taagctagggcaatttttaaattgtaatttatcattaaggaagcaaaacaatataattcc 420
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct: 561 taagctagggcaatttttaaattgtaatttatcattaaggaagcaaaacaatataatttc 620

                                                                       
Query: 421 acttatattttaaaaatgcttatatcatagttaattattttttataaatagtaaatgaaa 480
           |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 acttatatttaaaaaatgcttatatcatagttaattattttttataaatagtaaatgaaa 680

                                                  
Query: 481 acacagaagtaaaatgaaaaaagaataaggttatatttt 519
           |||||||| ||||||||||||||||||||||||||||||
Sbjct: 681 acacagaattaaaatgaaaaaagaataaggttatatttt 719


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: 24
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: 519
Length of database: 919
Length adjustment: 10
Effective length of query: 509
Effective length of database: 909
Effective search space:   462681
Effective search space used:   462681
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)


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