BAC Information

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BAC

Clone NameMSMg01-423N02
Chromosome6 (Build37)
Map Location 52,128,384 - 52,128,988
singlet/doubletsinglet
Overlap geneHoxa3
Upstream geneEG625167, Nfe2l3, Hnrpa2b1, Cbx3, Snx10, LOC100041820, Skap2, LOC666391, Hoxa1, Hoxa2
Downstream geneHoxa4, Hoxa5, Hoxa6, Hoxa7, Hoxa9, Hoxa10, Hoxa11, Hoxa13, Evx1, EG666487, 1700094M24Rik, EG545841, Hibadh, Tax1bp1, Jazf1, LOC666259, LOC666516
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-423N02.T7 (MSMg01no423_n02.b1)MSMg01-423N02.TJ (MSMg01no423_n02.g1)
ACCAG517884AG517885
length736736
length of high quality
(start - end)
575 (36 - 610)604 (67 - 670)
definitionCHROMAT_FILE: MSMg01no423_n02.b1 PHD_FILE: MSMg01no423_n02.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:44:35 2005CHROMAT_FILE: MSMg01no423_n02.g1 PHD_FILE: MSMg01no423_n02.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:44:35 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCAGTAA
GATTGCTACCTATTCAGTGACATTCAGAATTGCCTCTAGTATTGTAAGAG
AGATAGTGAAAGAAATCAGGCACTACTATCTACTACATAGAGTTAGAAAT
CTCAGGGCAAGCTTAACAAAGTAAGTTGAGAATTCTTATTATAGTTATGA
ATGGCAGACTACATTACTTAATATTGAAAGTCCCCTACACAATCACTTAG
AATAAAAGCTGAATCACTCTCATATACAGGAATTTACAATAGTTTAGAAA
ATAGATTGGGCTGTGATTTGAGGAGGAACTAGAATATTGCATTATTCATG
AGAAGGTTAGCTAAAGCAGAACTCCCTAATTAGAACCATGGCTTGGGCAT
GAAAGCCCTTGCCCTGGGAGTATAAAGACCTCACACCTGGATTCTAAGAC
TATAGCTGACCTTAGATAGAGCTGACTTTGTCTCAGTTGTTTTATTGCCT
AGTTCCTGCTAGGCTTTATGTATGCATTCCTCTGTTTTGTGTAAGAGTTG
TTAAGCATCCGGTAACTTCAGTGTACCTTGACTGATGTGTCACCTAACTT
CCTTATTTTCTTCTGTATTAAAAATTTGATGCTTGCTTTGAGAAATTACA
TTCAGATACAACCCTCTCTCTGGTGTCCGCGTCTGTTTGTCATCCCGCTG
ACTTCTTGTCCACCCGATTGTTGAAATCCTGGTTTN
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXTGTAGCTGTAGTCCTTAGCAAGCAGAGACAACGT
TTCTCTGGCTTTATATCCCCTGAAAGGGAGCTATTGCCAGTATGGAGGGA
GATTAGTTAAACTGCTCCGCTCCAAAATATTGGCCAGGCTGGGGCTAATT
GGGCTTTGGGGACCTTCTGCTCCTGGGAAGAGTGAAAGTCTTTGGAAAGG
TGAAAGAAATTGGTCTTTACTTTGCTCCTTGAAGCAGATAAAGAGATCCC
TGTGAGGAGTTAGGAATCAAATTTGCCTTCTTTAGTTAAAAAAAATATTC
ATATTCCTTTATTTAAAAAATTCAAATCAGGCTTCTCCGACTTGAGTGAG
ATTTACTTCCCCAGGCAGGGTGGATTCTGCCCTCCCTCGTGCCGACCTCG
GTGGTAACTGTGCTTAACTGAGGCTGTTTGAGTGCTCTAAAACACCCCTT
GGAAATAAAATGTAAGCTTTAATTGCTGTTCAATTACTTGTCAGCATTTC
ATATGATTTATGACCCAGTTCTGGTGCATTTTTGACCAAGTTAAAGACTC
ATAAATAATATAGTTTCACTAGAAAGAAGGAGAAATGGAGTAAAGGTTTG
TTAGAGGCATCTTTTTATTGTGGCTTCAGTGCCGACTAGAGAATAAATAT
CTAACCACAGACTCTCCAGTCTGGTTCTGTATAAAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no423_n02.g1 MSMg01no423_n02.g1 CHROMAT_FILE:
MSMg01no423_n02.g1 PHD_FILE: MSMg01no423_n02.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:44:35 2005
         (604 letters)



>mm_chr6_52128184_52129188
          Length = 1005

 Score = 1116 bits (577), Expect = 0.0
 Identities = 598/605 (98%), Gaps = 1/605 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   tgtagctgtagtccttagcaagcagagacaacgtttctctggctttatatcccctgaaag 60
           |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 805 tgtagctgtagtccttagcaagcagagacaacatttctctggctttatatcccctgaaag 746

                                                                       
Query: 61  ggagctattgccagtatggagggagattagttaaactgctccgctccaaaatattggcca 120
           |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 745 ggagctattgcctgtatggagggagattagttaaactgctccgctccaaaatattggcca 686

                                                                       
Query: 121 ggctggggctaattgggctttggggaccttctgctcctgggaagagtgaaagtctttgga 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 685 ggctggggctaattgggctttggggaccttctgctcctgggaagagtgaaagtctttgga 626

                                                                       
Query: 181 aaggtgaaagaaattggtctttactttgctccttgaagcagataaagagatccctgtgag 240
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 625 aaggtgaaagaaattagtctttactttgctccttgaagcagataaagagatccctgtgag 566

                                                                       
Query: 241 gagttaggaatcaaatttgccttctttagtt-aaaaaaaatattcatattcctttattta 299
           ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 565 gagttaggaatcaaatttgccttctttagttaaaaaaaaatattcatattcctttattta 506

                                                                       
Query: 300 aaaaattcaaatcaggcttctccgacttgagtgagatttacttccccaggcagggtggat 359
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 aaaaattcaaaccaggcttctccgacttgagtgagatttacttccccaggcagggtggat 446

                                                                       
Query: 360 tctgccctccctcgtgccgacctcggtggtaactgtgcttaactgaggctgtttgagtgc 419
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 445 tctgccctccctcgtgcagacctcggtggtaactgtgcttaactgaggctgtttgagtgc 386

                                                                       
Query: 420 tctaaaacaccccttggaaataaaatgtaagctttaattgctgttcaattacttgtcagc 479
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 tctaaaacaccccttggaaataaaatgtaagctttaattgctgttcaattacttgtcagc 326

                                                                       
Query: 480 atttcatatgatttatgacccagttctggtgcatttttgaccaagttaaagactcataaa 539
           |||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 325 atttcatatgatttatgacccagttctggtgcatttttgacccagttaaagactcataaa 266

                                                                       
Query: 540 taatatagtttcactagaaagaaggagaaatggagtaaaggtttgttagaggcatctttt 599
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 taatatagtttcactagaaagaaggagaaatggagtaaaggtttgttagaggcatctttt 206

                
Query: 600 tattg 604
           |||||
Sbjct: 205 tattg 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: 29
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 604
Length of database: 1005
Length adjustment: 10
Effective length of query: 594
Effective length of database: 995
Effective search space:   591030
Effective search space used:   591030
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)