BAC Information

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BAC

Clone NameMSMg01-540D19
Chromosome6 (Build37)
Map Location 64,929,491 - 65,069,325
singlet/doubletdoublet
Overlap geneLOC100041833, LOC667115, Smarcad1
Upstream geneGrid2, Atoh1
Downstream genePtgds2, LOC100042741, LOC100041858, LOC634745, EG667141, C130060K24Rik, 9030611K07Rik, A930038C07Rik, LOC667160, Prdm5, 4930544G11Rik, Ppia-ps6_651.1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-540D19.T7 (MSMg01no540_d19.b1)MSMg01-540D19.TJ (MSMg01no540_d19.g1)
ACCAG606536AG606537
length738740
length of high quality
(start - end)
530 (65 - 594)622 (73 - 694)
definitionCHROMAT_FILE: MSMg01no540_d19.b1 PHD_FILE: MSMg01no540_d19.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:19:27 2005CHROMAT_FILE: MSMg01no540_d19.g1 PHD_FILE: MSMg01no540_d19.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:19:27 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(64,929,491 - 64,930,020)(65,069,003 - 65,069,325)
sequence
ATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAAT
TCAGCTGGATATGTCCCTGAAGGAAAGAAAGACTGGTTCCTCCTTCATTT
GCTGCTTTCAGTTGACAATATTTAATGGCTTCTTGCTGTCATTGCCCACG
CCTACAAAAATTTTATTTTGTGTTTTTGAATAAGTGCATCTGCACATTCC
TGATTCTAGGGACAAGAGCCAAACCCCAGTGTCCTACCTCCAACGTAAAT
CGCTGAGGCATTTCTACGGCTATTCTGTCACAGTTGGGATTGTGGGGCCT
GCTGTCACCAGATGAGAACTTCAGAAGCAGCTGTCCATGGAGAGAAGAAC
AAGTGTGTACTAAATAGAGGAGTGTCCAATTATGTGACAACCCCTCTGTA
ACAAAATTTTGTTTCAAATTTCTAAAAAAGAAAAAAGAAAGAAACAGGAA
TATCAGGGTAATGCTACAAAAACCAAAGTATTATCCCTGAGCAAGAAGGA
TTTATCAAACCCCCCAAAAAATATTAAATAAAATAGAACACTGGGGACCG
GACTGTTCTAGATTAAAGAAAATTAGATATTTCTTTTTTAATCTAACGAG
CACTTGGAAGATGATTACNAGGGAAAAGACCCTTACCACTGAGCCTGACA
ATCTGAATTCCATCCCAGGACCCATGTGACTGAAGGAAAGAAGCAATTCC
TGCAAGCTGTCCTCTGTCTCCACACATATACCATGGTN
CATGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXAGCATTGTTGCAATTCAGAAGGCTGTAG
AGACAAGGAAAGGAGCTGTGACATAGAAAGTTCGATACCCCAGAGACAAG
AGACAGAGGGTTACAATAATCTTTCACATGAGAAAAACAAAAGCAGGCTG
GAGAGATGGCTCAGCAATTAGCACTGACTGCTCTTCCAGAGGTTCTGAGT
TCAATTCCCAGCAAACCACATGGTGGTTCACAACTATCTGTAATGGGATC
TGATCTTCTGGTGTGTCTGAAGAGAACGACAGTGTACTCACATACATACA
ATAAAGAAATCTAGCCGAGCGGTGGTGGCGCGCGCCTTTAATCCCAGCAC
TTGGGAAGCAGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCCTGGTCTA
CAAACTGAGTTCCAGGACAGCCAGAGCTACACAGAGAAACCATCTCGGAA
AACCAAAACAATAGAAAACCAAAACAATAAAGAAATCTTAAAAAACAAAC
AAACAAACAAACAAAAAACAGTAGACTAAGAAGACTGGGAGAACATGTGT
GCAGAACATTCACCTGGTAAAGATTTGTTTAAAATATAAAAGAACTGTGA
AAATTCTATAGTAAAAAAAAATAAATACCCAGATTGAAATGTTAGCTGGA
AGATACACAGATGGCCATGAGCCTGTGAGGAGGCAGCAAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no540_d19.b1 MSMg01no540_d19.b1 CHROMAT_FILE:
MSMg01no540_d19.b1 PHD_FILE: MSMg01no540_d19.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:19:27 2005
         (530 letters)



>mm_chr6_64929291_64930220
          Length = 930

 Score = 1009 bits (522), Expect = 0.0
 Identities = 528/530 (99%)
 Strand = Plus / Plus

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

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

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

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

                                                                       
Query: 241 tcaccagatgagaacttcagaagcagctgtccatggagagaagaacaagtgtgtactaaa 300
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 441 tcaccagatgagaacttcagaagcagctgtccatggagagaagaacaagtgtgtacaaaa 500

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

                                                                       
Query: 361 aaaaagaaaaaagaaagaaacaggaatatcagggtaatgctacaaaaaccaaagtattat 420
           |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 aaaaggaaaaaagaaagaaacaggaatatcagggtaatgctacaaaaaccaaagtattat 620

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

                                                             
Query: 481 ggaccggactgttctagattaaagaaaattagatatttcttttttaatct 530
           ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 ggaccggactgttctagattaaagaaaattagatatttcttttttaatct 730


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: 31
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: 530
Length of database: 930
Length adjustment: 10
Effective length of query: 520
Effective length of database: 920
Effective search space:   478400
Effective search space used:   478400
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= MSMg01no540_d19.g1 MSMg01no540_d19.g1 CHROMAT_FILE:
MSMg01no540_d19.g1 PHD_FILE: MSMg01no540_d19.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:19:27 2005
         (622 letters)



>mm_chr6_65069003_65070024
          Length = 1022

 Score =  617 bits (319), Expect = 0.0
 Identities = 322/323 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   agcattgttgcaattcagaaggctgtagagacaaggaaaggagctgtgacatagaaagtt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 323 agcattgttgcaattcagaaggctgtagagacaaggaaaggagctgtgacatagaaagtt 264

                                                                       
Query: 61  cgataccccagagacaagagacagagggttacaataatctttcacatgagaaaaacaaaa 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 263 cgataccccagagacaagagacagagggttacaataatctttcacatgagaaaaacaaaa 204

                                                                       
Query: 121 gcaggctggagagatggctcagcaattagcactgactgctcttccagaggttctgagttc 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 203 gcaggctggagagatggctcagcaattagcactgactgctcttccagaggttctgagttc 144

                                                                       
Query: 181 aattcccagcaaaccacatggtggttcacaactatctgtaatgggatctgatcttctggt 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 143 aattcccagcaaaccacatggtggttcacaactatctgtaatgggatctgatcttctggt 84

                                                                       
Query: 241 gtgtctgaagagaacgacagtgtactcacatacatacaataaagaaatctagccgagcgg 300
           || |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 83  gtatctgaagagaacgacagtgtactcacatacatacaataaagaaatctagccgagcgg 24

                                  
Query: 301 tggtggcgcgcgcctttaatccc 323
           |||||||||||||||||||||||
Sbjct: 23  tggtggcgcgcgcctttaatccc 1


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: 16
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: 622
Length of database: 1022
Length adjustment: 10
Effective length of query: 612
Effective length of database: 1012
Effective search space:   619344
Effective search space used:   619344
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)