BAC Information

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BAC

Clone NameMSMg01-147H11
ChromosomeY (Build37)
Map Location 1,266,153 - 1,266,811
singlet/doubletsinglet
Overlap genenone
Upstream geneJarid1d, Eif2s3y, Tspy-ps, Uty, Ddx3y, LOC100042763, LOC385246, Usp9y, LOC100039278, EG667079
Downstream geneLOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, LOC100039430, Vmn2r-ps137, LOC100039450, LOC547210, Ube1y1-ps1, Sry, LOC100042840, LOC100042849, LOC620228, LOC667181, Rbmy1a1, LOC667189, LOC100042874, LOC667194, LOC100042881, LOC667201, LOC100039546
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-147H11.T7 (MSMg01no147_h11.b1)MSMg01-147H11.TJ (MSMg01no147_h11.g1)
ACCAG350730AG350731
length716727
length of high quality
(start - end)		535 (42 - 576)646 (78 - 723)
definitionCHROMAT_FILE: MSMg01no147_h11.b1 PHD_FILE: MSMg01no147_h11.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:10:04 2005CHROMAT_FILE: MSMg01no147_h11.g1 PHD_FILE: MSMg01no147_h11.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:10:04 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
TCCTXXXXXXXXXXXXXXXXXXXXXXXXXXXXCCAAAGAGGATCCGCGGA
ATTCTCTTCTAGCTTCTATGTGCACCACACATGCATGTTTATAAACACAA
ACATGCAAAAACAAATTACTTAAATAAATAAAACAATTGAAAATTACAAA
CAACAGCACCTTCATCTGAAACAAAGTAGGAGAGTCTTGTTTGGGGTCCG
TTTTATTTTAGCTTTCAAGTTAGTATTGTAAACTTGGAAAATGGAAAGCC
TCTGGGTAGTAGTGGCAGCTAAAATACTACCTCCTTTTTGCTCTTCAATG
ACAGACGACTGATTGAGCCTTTCTCACCCTTAGTACACATGTGCAAACAC
TGCCAATCAGCAAGGGCCTTGGCTGAGATTGTTTTCCCGCTATCCAAACC
CTGTTACCCACCACGCTTTGTGGTAGTCATCAAGCCGAGTTCTTGTGGAA
GCAAGGTTCTTGAGGAAGCATGGTAGGGAGAAGTCTCAGTAGAGGTAGTC
AATTGTCTGTTGAAAGATGATTAATACTGTTTGAGCTGGGGGCCTGTGTG
GGGAAGAAGGTGGAGGGGTGGAGGTGTCCCCTTTCCTTCCTTTCCCCCCC
TTTTTCCTTTTTTCNTCCCGTCCCTCCCATTCCCCCTTTCCCTTCTTCCC
CCTCTCTTCCTTCCCTCCCCCCTTTTCTCTTCTCTTTCCATTTTTCCTCT
TTTTTCTTCTCCCTTT

CCGATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXCATCAAAAAAATTGTATGAAGTT
CTCAAGGAATTAATTAATGTAGTTCTTAATATACAATGTCTTTACTGAAC
ATATATAGACCACTTATATTTCAATCTCCTAAATAGCAACTCATTTTATA
GCACTTACATTACATTAAGTGCAAAAGTAATCCAGAGATTATTTAAAATA
AAGAAGGATCAGGGGATATGGCCCAGAGACAATGCCATGTGTGTGTTCAA
ACATTCACCTACAACACCAGTGCTTATGATTTTGGGAGGGGCAGAGACAG
GAAGATGACTGTGGCTTCCTGAAAGCCAGCTCAGCAAGAAACCCAGTCAC
AAGGGGATAAGTTATGGAGGAAAAGAGTAGATCACACTATACCCTTCCCT
AGCCTCTGAACTTACCTGTACAGTTCTCTATGTAGACTCACATAAATATG
ATTAAAATATGCAAGAGGTTATTTTGCATAGCTTATATTCAAAAGCAATG
TTGTTTTAGACTAGAAACCTGAGGACTTTATATCATTATAGTTCCTGGAG
CAAACTCCCAAGATATAGATGATGGGTATATCTTCTTACTGTGCAAAGGA
AACCTCAGTTAAGTGTGTGTGTCAGTGACTCCAAACAGCTTTCCTCCTCT
ATGTTCCTTTATATAGCATAGAATGAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no147_h11.g1 MSMg01no147_h11.g1 CHROMAT_FILE:
MSMg01no147_h11.g1 PHD_FILE: MSMg01no147_h11.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:10:04 2005
         (646 letters)



>mm_chrY_1265963_1267011
          Length = 1049

 Score =  596 bits (308), Expect = e-174
 Identities = 572/672 (85%), Gaps = 39/672 (5%)
 Strand = Plus / Plus

                                                                       
Query: 1   catcaaaa-aaattgtatgaagttctcaaggaattaattaatgtagttcttaatatacaa 59
           |||||||| | |||||||||| |||||||||||||||| || |||||||||||||||| |
Sbjct: 191 catcaaaatatattgtatgaaattctcaaggaattaatgaaagtagttcttaatatacca 250

                                                                       
Query: 60  tgtctttactgaacatatatagaccacttatatt-tcaatctcctaaatagcaactc--a 116
           ||||| ||||||||||||| |||||||||||||| || |||||||||||| ||||||  |
Sbjct: 251 tgtctgtactgaacatatacagaccacttatattgtc-atctcctaaataacaactccta 309

                                                                       
Query: 117 ttttatagcacttacattacattaagtgcaaaagtaatccagagattatttaaaataaag 176
              ||||||| || |||| ||||||| |||||||| |||||||||| |||||||||||||
Sbjct: 310 ---tatagcagtttcattgcattaagggcaaaagtcatccagagatcatttaaaataaag 366

                                                                       
Query: 177 aaggatcaggggatatggcccagag--acaatgcc-atgtgtgtgttcaaacattcacct 233
           ||||||||||  | ||||||||| |  | || ||| || ||| || ||| ||||||||||
Sbjct: 367 aaggatcaggcaagatggcccaggggta-aa-gccaat-tgtttggtcagacattcacct 423

                                                                       
Query: 234 acaacaccagtgcttatgattttgggaggggcagagacaggaagatgactgtggcttcct 293
           | |||| ||||||| | ||  | ||||||||||||||||| |||| ||||||||||||||
Sbjct: 424 ataacaacagtgctcagga--tggggaggggcagagacagaaagaagactgtggcttcct 481

                                                                       
Query: 294 gaaagccagc------------tcagcaagaaacccagtcacaaggggataagttatgga 341
           |||||| |||            |||||||||||||| |||| ||||| | || ||| |||
Sbjct: 482 gaaagcaagcctcactcctaggtcagcaagaaaccctgtcataagggaacaaattaggga 541

                                                                       
Query: 342 g-gaaaagagtagatcacactatacccttccctagcctctgaacttacctgtacagttct 400
           | | || ||| ||| |||||| |||| |||||| ||||||||| |||||||||||| |||
Sbjct: 542 gtg-aaggagcagaacacactgtacctttccctggcctctgaatttacctgtacaggtct 600

                                                                       
Query: 401 ctatgtagactcacataaatatgattaaaatatgcaagaggttattttgcatagcttata 460
            |||| | || |||||||||||||||||| ||| |||||||||| ||||||||| |||||
Sbjct: 601 gtatgcacacacacataaatatgattaaagtatacaagaggttactttgcatagattata 660

                                                                       
Query: 461 t-tcaaaagcaatgttgttttagactagaaacctgaggac-tttatatcattatagttcc 518
           | | ||||||||||||||||||| ||||| |||||||||| ||||||||||||  | |||
Sbjct: 661 tgt-aaaagcaatgttgttttagcctagagacctgaggacttttatatcattaggggtcc 719

                                                                       
Query: 519 tggagcaaactcccaagatatagatg---atgggtatatcttcttactgtgcaaaggaaa 575
           |||||||||||||| | ||||||| |   |||||||||||||||||||||||||||||||
Sbjct: 720 tggagcaaactccccatatataga-gagaatgggtatatcttcttactgtgcaaaggaaa 778

                                                                       
Query: 576 cctcagttaagtgtgtgtgtcagtgactccaaacagctttcctcctctatgttcct-tta 634
           |||||||||||||||||||||||||||||||||||||||||||||||||  ||||| || 
Sbjct: 779 cctcagttaagtgtgtgtgtcagtgactccaaacagctttcctcctctaaattcctatt- 837

                       
Query: 635 tatagcatagaa 646
           ||||||| ||||
Sbjct: 838 tatagcacagaa 849


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: 12
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: 646
Length of database: 1049
Length adjustment: 10
Effective length of query: 636
Effective length of database: 1039
Effective search space:   660804
Effective search space used:   660804
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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