BAC Information

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BAC

Clone NameMSMg01-336G08
Chromosome18 (Build37)
Map Location 61,174,192 - 61,339,200
singlet/doubletdoublet
Overlap geneCdx1, Pdgfrb, Csf1r, A630042L21Rik
Upstream geneEG240327, LOC546714, EG225594, F830016B08Rik, LOC667578, EG667584, LOC435565, Iigp1, EG629292, LOC667597, 2010002N04Rik, Dctn4, Rbm22, Myoz3, Synpo, LOC100042675, Ndst1, Rps14, LOC667619, Cd74, Tcof1, LOC100042699, Arsi, Camk2a, Slc6a7
Downstream geneSlc26a2, Pde6a, EG667279, Ppargc1b, LOC667675, 4933429F08Rik, Csnk1a1, Il17b, Pcyox1l, LOC100042730, Grpel2, Afap1l1, LOC100042738, Ablim3, Sh3tc2, Adrb2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-336G08.T7 (MSMg01no336_g08.b1)MSMg01-336G08.TJ (MSMg01no336_g08.g1)
ACCAG451425AG451426
length737718
length of high quality
(start - end)		435 (45 - 479)505 (75 - 579)
definitionCHROMAT_FILE: MSMg01no336_g08.b1 PHD_FILE: MSMg01no336_g08.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:24:27 2005CHROMAT_FILE: MSMg01no336_g08.g1 PHD_FILE: MSMg01no336_g08.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:24:27 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(61,174,192 - 61,174,623)(61,338,696 - 61,339,200)
sequence
TCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCAGCATTACCAAACATAGAAAACAGCCAGAATGGAGCTGCTGCACAC
AGTAGGCACCCAACTAATGTTTAGCTCACTCAGCTACTAGCCAATCGCCC
AGTCAATCAGTGCTTATCCAATACCTTAAAATAGTCCTGGACCTCATCTT
GTTTTCTCAACCCAGAGAGGGCGTTGTTTAGTCCTTCCGTTTCACGGATG
AGGAAACCAAAGGCCAGGGGAGGTAGGTTACTCACTTAAGGCCGTGCAGT
TAGCATGTGACACCAGGGACAGAGCCAGTCCTCATAGACTTCCCATAAAC
GTAGCATAACTCCTTTTCTTGGGATGAAAGTGTATGCAGTTAGGAGGTTT
GGGAGAGGGGAAGGAACCAGCAAGTGCTACAGTGTTGTGGTGGCTTGTGA
TGTAACGGTAAGGCAGGTTCCTGTCTATCAGCACTATGGCCTCTGGGCTA
TCCATTTTATCTTGTCAACCGGGGGCACCCAACAGCAGATGCCTGGCTTA
AGCTTTTTATACCATTTTTTGAGCCTTCCGGTTATGATGGTTAAGTGATA
ACTGGAGTGTATGACGTTATTCCTGGGCCTACCTTGGTGGTAATACACCC
CCTTTTGAAACCCTGGTTTGTGACTAATCCCATGGTCCTCCAAAGAAGGT
CTCTTTTTAAAACTTTATCAATCCCACTTTTTTTTAA

ATTGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXACCTATAAAACTTGGAGGCTAATTTA
AGTGCAACTGGGAGTTCCAAGACTGTGGCTTAAAGAACTGGTGTCAGAAA
TAGGAATCCTAGAGTTAGGAGTGTAGCCCTGCAGCAGGGTACATGCACAA
AGCCCTAAGCTGGATCGCCAGCACTGAATGGGGACAGGGTAACAACAGCC
CAGATCAGATATGGGAAGTTGGTTTTCAAAGACAGTGGCAAGTATTCAGG
TGGCGCTGGCTGTTTTTGTGCCTTGGTGTGAAGTGAAGGAGTAAAGGGTA
ACTCTCACATTCTAGTGGATGCTGATGTCACTGACTGAGATGGGGACCAC
TTCCTGAGGATATACTACGTGAAGCACCTTCTACCACTCATAGAGCTCCC
TTTTAGCAGGATGAAGGTACATGCTCCAAGTCGTTAGGTCCAAAGGAAAC
TCCACTTTCCAAAACTCCAAAATGCAGTCCAGATATCCAGAAATGGGCTC
AGTCTGGACTACAGGAGGATTTCTGGTAGCAAGAGAAATGCCAGCGTTTC
TCAGGAACCAAATTAAGTCACTTTGCTTATCTCTGGCCGAAGGCACCGTG
GCGTCCATTACCCCATTTAAGCTGAAGTTGGACCCCAAGGCTCCCCCAGG
GCTAAACATTGCTTTTTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no336_g08.b1 MSMg01no336_g08.b1 CHROMAT_FILE:
MSMg01no336_g08.b1 PHD_FILE: MSMg01no336_g08.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:24:27 2005
         (435 letters)



>mm_chr18_61173989_61174823
          Length = 835

 Score =  789 bits (408), Expect = 0.0
 Identities = 426/432 (98%)
 Strand = Plus / Plus

                                                                       
Query: 4   ggaattcagcattaccaaacatagaaaacagccagaatggagctgctgcacacagtaggc 63
           |||||||||||  |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 204 ggaattcagcaagaccaaacatagaaaacagccagaatggagctgctgcacacagtaggc 263

                                                                       
Query: 64  acccaactaatgtttagctcactcagctactagccaatcgcccagtcaatcagtgcttat 123
           || ||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 264 acacaactaatgtttagctcactcagctactagccaattgcccagtcaatcagtgcttat 323

                                                                       
Query: 124 ccaataccttaaaatagtcctggacctcatcttgttttctcaacccagagagggcgttgt 183
           |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct: 324 ccaataccttaaaatagtcctggaccgcatcttgttttctcaacccagagagggcgttgt 383

                                                                       
Query: 184 ttagtccttccgtttcacggatgaggaaaccaaaggccaggggaggtaggttactcactt 243
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 384 ttagtccttccgtctcacggatgaggaaaccaaaggccaggggaggtaggttactcactt 443

                                                                       
Query: 244 aaggccgtgcagttagcatgtgacaccagggacagagccagtcctcatagacttcccata 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 444 aaggccgtgcagttagcatgtgacaccagggacagagccagtcctcatagacttcccata 503

                                                                       
Query: 304 aacgtagcataactccttttcttgggatgaaagtgtatgcagttaggaggtttgggagag 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 504 aacgtagcataactccttttcttgggatgaaagtgtatgcagttaggaggtttgggagag 563

                                                                       
Query: 364 gggaaggaaccagcaagtgctacagtgttgtggtggcttgtgatgtaacggtaaggcagg 423
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 564 gggaaggaaccagcaagtgctacagtgttgtggtggcttgtgatgtaacggtaaggcagg 623

                       
Query: 424 ttcctgtctatc 435
           ||||||||||||
Sbjct: 624 ttcctgtctatc 635


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: 19
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: 435
Length of database: 835
Length adjustment: 9
Effective length of query: 426
Effective length of database: 826
Effective search space:   351876
Effective search space used:   351876
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_g08.g1 MSMg01no336_g08.g1 CHROMAT_FILE:
MSMg01no336_g08.g1 PHD_FILE: MSMg01no336_g08.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:24:27 2005
         (505 letters)



>mm_chr18_61338496_61339400
          Length = 905

 Score =  953 bits (493), Expect = 0.0
 Identities = 502/505 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   acctataaaacttggaggctaatttaagtgcaactgggagttccaagactgtggcttaaa 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 705 acctataaaacttggaggctaatttaagtgcaactgggagttccaagactgtggcttaaa 646

                                                                       
Query: 61  gaactggtgtcagaaataggaatcctagagttaggagtgtagccctgcagcagggtacat 120
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 645 gaactggtgtcagaaataggaatcctagaggtaggagtgtagccctgcagcagggtacat 586

                                                                       
Query: 121 gcacaaagccctaagctggatcgccagcactgaatggggacagggtaacaacagcccaga 180
           ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 585 gcacaaagctctaagctggatcgccagcactgaatggggacagggtaacaacagcccaga 526

                                                                       
Query: 181 tcagatatgggaagttggttttcaaagacagtggcaagtattcaggtggcgctggctgtt 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 525 tcagatatgggaagttggttttcaaagacagtggcaagtattcaggtggcgctggctgtt 466

                                                                       
Query: 241 tttgtgccttggtgtgaagtgaaggagtaaagggtaactctcacattctagtggatgctg 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 465 tttgtgccttggtgtgaagtgaaggagtaaagggtaactctcacattctagtggatgctg 406

                                                                       
Query: 301 atgtcactgactgagatggggaccacttcctgaggatatactacgtgaagcaccttctac 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 405 atgtcactgactgagatggggaccacttcctgaggatatactacgtgaagcaccttctac 346

                                                                       
Query: 361 cactcatagagctcccttttagcaggatgaaggtacatgctccaagtcgttaggtccaaa 420
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 345 gactcatagagctcccttttagcaggatgaaggtacatgctccaagtcgttaggtccaaa 286

                                                                       
Query: 421 ggaaactccactttccaaaactccaaaatgcagtccagatatccagaaatgggctcagtc 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 285 ggaaactccactttccaaaactccaaaatgcagtccagatatccagaaatgggctcagtc 226

                                    
Query: 481 tggactacaggaggatttctggtag 505
           |||||||||||||||||||||||||
Sbjct: 225 tggactacaggaggatttctggtag 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: 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: 505
Length of database: 905
Length adjustment: 10
Effective length of query: 495
Effective length of database: 895
Effective search space:   443025
Effective search space used:   443025
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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