BAC Information

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BAC

Clone NameMSMg01-046G24
Chromosome18 (Build37)
Map Location 35,088,560 - 35,174,808
singlet/doubletdoublet
Overlap geneEtf1, Hspa9, LOC100041377, EG626954
Upstream geneEpb4.1l4a, EG666296, Ppia-ps18_318.1, Ppia-ps18_319.1, LOC666313, Apc, Srp19, Reep5, Pkd2l2, 2610024E20Rik, Wnt8a, Nme5, 4933408B17Rik, Brd8, Kif20a, Cdc23, Gfra3, Cdc25c, LOC100041859, 2810012G03Rik, LOC100041879, LOC100041887, Jmjd1b, Reep2, Egr1
Downstream geneLOC100041951, Ctnna1, Lrrtm2, Sil1, LOC100041423, LOC666460, LOC666462, EG383341, EG436583, Matr3, Paip2, Slc23a1, 2010001M09Rik, Gm1614, 5133400G04Rik, Dnajc18, 1110006O17Rik, 1700066B19Rik, 2610307O08Rik, LOC666505, Ube2d2, Cxxc5, LOC100042131, Psd2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-046G24.T7 (MSMg01no046_g24.b1)MSMg01-046G24.TJ (MSMg01no046_g24.g1)
ACCAG276814AG276815
length688693
length of high quality
(start - end)		606 (69 - 674)554 (74 - 627)
definitionCHROMAT_FILE: MSMg01no046_g24.b1 PHD_FILE: MSMg01no046_g24.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 12:06:36 2005CHROMAT_FILE: MSMg01no046_g24.g1 PHD_FILE: MSMg01no046_g24.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 12:06:36 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(35,174,233 - 35,174,808)(35,088,560 - 35,089,113)
sequence
CATXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTCAGAGAATCCGCGGAAT
TCTTCCCCAGATGCAGTGGTGGCTGCCCATAACAAACACCCAGGATCAGG
CTAACAGTCACAGGCTAACAGTCACCTTCCCATACGACCTCATCCCACTT
TCTCCGGGCAAATAGGGTTAGCAATGAGGATGAGGGGCCTCTGCTCCAGC
CCTCCAGCAGTCAGGCTCCAAGCCGTCCTCTAGCCCTGCTGTCCCAAGTC
CTTCACTCACTAGCCCTTCTGCTCCAGCCCCATCGGAGGTACCCCCAGCT
TACCCATGGCGTTATTTAGGGGGACTTTGCCTTCCAGGGCTCACCCCTGC
TGTGGTAGCTCCTGCGATGCCCATCATCGTTGTCATCATGCCCACCCGCA
ACACACACACACACTGGACGGCCTCTTTCCCAGGGCCTCATGCTGGTGTC
ACAGGCAGTCCTCAATTAGGTCCGCCTGCAGGACATGCTTTTGCAGCTCC
ACCACCCCCAGCATTTACACAGAGGCAGCCCCACCATTCCTGCTACATAT
CACCAAGGCTGCTGATGTAAATTCCATTTCTGGGACCCAAAACACGGAAG
GAGAGTATCAACTTTAGCAAGGCATCCTCTCTTTCTCTCTCTCTCTCTCT
CTCTCTCTCTCTCTCTCTCTCTCTCTCTCAACACACAT

CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXCAGGCCAGCCAAGGCTACAGTGAGAAT
CTGACTCAAAAAACAAAACAAAACAAACAAACAAACAAATAAAAAACCCC
TAGCCCCAGAACTTGACTTAAGGTAGGAGAAAGTCGACTCCTCAAAGTTG
GCCATGAATATACAAAGAGAAGAGAAATCAAAGTTAATGGGACAGAGGGA
GGCAGACCCACATCATCTAGCTCACAAGTTCCTTTTCATTTCAGAAACAA
CTCTAGGCACCCATCACTACCTCAGTCTGTGCTACCTGCATCTGACAACA
CGCGTTTGTTCTCTACGGAAGCCCAACTGGAACACCAACACTGGTGCCTA
TGGATCCATTTACCATGCAATTTGTCTCTAAGTTCATCACAAGCATCCTA
ATAATACTTTAGTATTAGCCAGGCGCCTTGGGGACAAAAGCAGACCAGGA
GGGCAAACCAGTTTTAGCCAGCCACATGAGGTAGAGGCCAAAGGGCTTTA
AAAAAATTATTTTTTGGTATAAATCACTATGAAAACATAAAGTCTAACAC
AACTCAGAATTAAATTAAATCTTGCCATTGTAATAAGAAAAAAAGTTCCC
CAGCCACATACAATAAACTTTTGATTCCCTGACTAACACAGAC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no046_g24.b1 MSMg01no046_g24.b1 CHROMAT_FILE:
MSMg01no046_g24.b1 PHD_FILE: MSMg01no046_g24.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 12:06:36 2005
         (606 letters)



>mm_chr18_35174020_35175028
          Length = 1009

 Score =  980 bits (507), Expect = 0.0
 Identities = 562/591 (95%), Gaps = 19/591 (3%)
 Strand = Plus / Minus

                                                                       
Query: 1   gtggctgcccataacaaacacccaggatcaggctaacagtcacaggctaacagtcacctt 60
           ||||||||||||||||||||||||||||              ||||||||||||||||||
Sbjct: 789 gtggctgcccataacaaacacccaggat--------------caggctaacagtcacctt 744

                                                                       
Query: 61  cccatacgacctcatcccactttctccgggcaaatagggttagcaatgaggatgaggggc 120
           |||||| ||||||||||||||||||||||||||| ||| |||||||||||||||||||||
Sbjct: 743 cccataggacctcatcccactttctccgggcaaacaggtttagcaatgaggatgaggggc 684

                                                                       
Query: 121 ctctgctccagccctccagcagtcaggctccaagccgtcctctagccctgctgtcccaag 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 683 ctctgctccagccctccagcagtcaggctccaagccgtcctctagccctgctgtcccaag 624

                                                                       
Query: 181 tccttcactcactagcccttctgctccagccccatcggaggtacccccagcttacccatg 240
           ||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 623 tccctcactcactagcccttctgctccagccccatcggaggtacccccagcttacccatg 564

                                                                       
Query: 241 gcgttatttagggggactttgccttccagggctcacccctgctgtggtagctcctgcgat 300
           ||||||||||||||||||||||||||||||||||||  ||||||||||||||||||||||
Sbjct: 563 gcgttatttagggggactttgccttccagggctcacttctgctgtggtagctcctgcgat 504

                                                                       
Query: 301 gcccatcatcgttgtcatcatgcccacccgcaacac----acacacacactggacggcct 356
           |||||||||||||||| |||||||| ||| || | |    ||||||||||||||||||||
Sbjct: 503 gcccatcatcgttgtcgtcatgccccccc-cacccccccaacacacacactggacggcct 445

                                                                       
Query: 357 ctttcccagggcctcatgctggtgtcacaggcagtcctcaattaggtccgcctgcaggac 416
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 444 ctttcccagggcctcatgctggtgtcacaggcagtcctcaattaggtccgcctgcaggac 385

                                                                       
Query: 417 atgcttttgcagctccaccacccccagcatttacacagaggcagccccaccattcctgct 476
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 384 atgcttttgcagctccaccacccccagcatttacacagaggcagccccaccattcctgct 325

                                                                       
Query: 477 acatatcaccaaggctgctgatgtaaattccatttctgggacccaaaacacggaaggaga 536
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 324 acatatcaccaaggctgctgatgtaaattccatttctgggacccaaaacacggaaggaga 265

                                                              
Query: 537 gtatcaactttagcaaggcatcctctctttctctctctctctctctctctc 587
           |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264 gtatcaactttagcaaggcatcctctctttctctctctctctctctctctc 214



 Score = 85.8 bits (44), Expect = 9e-21
 Identities = 47/48 (97%)
 Strand = Plus / Plus

                                                           
Query: 559 ctctctttctctctctctctctctctctctctctctctctctctctct 606
           |||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 138 ctctctctctctctctctctctctctctctctctctctctctctctct 185



 Score = 83.9 bits (43), Expect = 3e-20
 Identities = 46/47 (97%)
 Strand = Plus / Plus

                                                          
Query: 560 tctctttctctctctctctctctctctctctctctctctctctctct 606
           ||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 137 tctctctctctctctctctctctctctctctctctctctctctctct 183



 Score = 81.9 bits (42), Expect = 1e-19
 Identities = 42/42 (100%)
 Strand = Plus / Plus

                                                     
Query: 565 ttctctctctctctctctctctctctctctctctctctctct 606
           ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 136 ttctctctctctctctctctctctctctctctctctctctct 177


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: 64
Number of extensions: 20
Number of successful extensions: 20
Number of sequences better than 10.0: 1
Number of HSP's gapped: 8
Number of HSP's successfully gapped: 8
Length of query: 606
Length of database: 1009
Length adjustment: 10
Effective length of query: 596
Effective length of database: 999
Effective search space:   595404
Effective search space used:   595404
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= MSMg01no046_g24.g1 MSMg01no046_g24.g1 CHROMAT_FILE:
MSMg01no046_g24.g1 PHD_FILE: MSMg01no046_g24.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 12:06:36 2005
         (554 letters)



>mm_chr18_35088360_35089313
          Length = 954

 Score = 1056 bits (546), Expect = 0.0
 Identities = 552/554 (99%)
 Strand = Plus / Plus

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

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

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

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

                                                                       
Query: 241 tcactacctcagtctgtgctacctgcatctgacaacacgcgtttgttctctacggaagcc 300
           |||||||||| |||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 441 tcactacctctgtctgtgctacctgcatctgacaacacgcgtttgttctctacggaaacc 500

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

                                                                       
Query: 361 tcatcacaagcatcctaataatactttagtattagccaggcgccttggggacaaaagcag 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 tcatcacaagcatcctaataatactttagtattagccaggcgccttggggacaaaagcag 620

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

                                                                       
Query: 481 aaattattttttggtataaatcactatgaaaacataaagtctaacacaactcagaattaa 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 aaattattttttggtataaatcactatgaaaacataaagtctaacacaactcagaattaa 740

                         
Query: 541 attaaatcttgcca 554
           ||||||||||||||
Sbjct: 741 attaaatcttgcca 754


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: 29
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: 554
Length of database: 954
Length adjustment: 10
Effective length of query: 544
Effective length of database: 944
Effective search space:   513536
Effective search space used:   513536
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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