BAC Information

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BAC

Clone NameMSMg01-175F16
ChromosomeY (Build37)
Map Location 1,266,168 - 1,266,780
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 nameMSMg01-175F16.T7 (MSMg01no175_f16.b1)MSMg01-175F16.TJ (MSMg01no175_f16.g1)
ACCAG370369AG370370
length706713
length of high quality
(start - end)
613 (71 - 683)617 (93 - 709)
definitionCHROMAT_FILE: MSMg01no175_f16.b1 PHD_FILE: MSMg01no175_f16.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:46:25 2005CHROMAT_FILE: MSMg01no175_f16.g1 PHD_FILE: MSMg01no175_f16.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:46:25 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
TCACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGC
GGAATTCCATCTACAAATTGTATGAAGTTCTCAAGGAATTAATTAATGTA
GTTCTTAATATACAATGTCTGTACTGAACATATACAGACCACTTATATTT
CAATCTCCTAAATAGCAACTCATTTTATAGCACTTACATTACATTAAGTG
CAAAAGTAATCCAGAGATTATTTAAAATAAAGAAGGATCAGGGGATATGG
CCCAGAGACAATGCCATGTGTGTGTTCAAACATTCACCTACAACACCAGT
GCTTATGATTTTGGGAGGGGCAGAGACAGGAAGATGACTGTGGCTTCCTG
AAAGTTAGTCTCACTACCAGCTCAGCAAGAAACCCAGTCACAAGGGGATA
AGTTATGGAGCAAAAGAGTAGATCACACTATACCCTTCCCTAGCCTCTGA
ACTTACCTGTACAGTTCTCTATGCAGACTCACATAAATATGATTAAAATA
TGCAAGAGGTTATTTTGTATAGCTTATATTCAAAAGCAATGTTGTTTTAG
ACTAGAAACCTGAGGACTTTATATCATTATAGTTCCTGGAGCAAACTCCC
AAGATATAGATGATGGGTATATCTTCTTACTGTGCAAAGAAAACCTCAGT
CAAGTGTGTGTGTCAGTGACTCCAAACAGCTTTCCTCCTCTATGTTCCTT
TATATA
NCCCCGTTCCNNCCCACCATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCTGGCTGG
CAGCAGCAGTACAAAAAAGGATCTAGTCTGTTTCCACCACTAACTGACCC
CCAGTTTACTCACAACTCACATCCCCAGGCCCCAAGAATACTTTTAGGGT
CTCCAATTCCCTAGCCTTCCTGCTTTCTGCTAGGTGATAATCTGTTCAAT
CTCCTGCCCATTGCGAAAAATTTCTTTGTTTTTCTTGGGTAAAATGGATT
GTGAACCCAGAAGCATTAACAGCAGGAGTCCAATGAGGGTCACCTGCTCT
CCTTTCTCCTTTAGTAACACCTCCATCCCTCCACCATAATCCCACTGGGA
CTCCCAGCTGAACCAGGATTAACCATCTTTCTACAGTTCACTGACTCCCT
CCACAGAGACTTCTCCCTACCATGCTTCCTAAAGAACTTTACTTCCTCAG
GAACTCAGCTTCCTGGCCACCACAAGGCATACTGAGTAACAGGGTTTGGA
CAGCAGGAAAAGAATCTTAGCCAAGCCCATTGTTTATTGGCCTGTTTACA
CATTCCTACAAAAGGTGAGAGAGGATTTATCAGTCATCTGTCATCACAGT
ATCAAAAACGAGGTAGTATTTTAGCTTCCACTACTACTAAGAGTTTTTCC
ATTTTTCAAGTTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no175_f16.b1 MSMg01no175_f16.b1 CHROMAT_FILE:
MSMg01no175_f16.b1 PHD_FILE: MSMg01no175_f16.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:46:25 2005
         (613 letters)



>mm_chrY_1265967_1266980
          Length = 1014

 Score =  571 bits (295), Expect = e-167
 Identities = 539/625 (86%), Gaps = 24/625 (3%)
 Strand = Plus / Plus

                                                                       
Query: 1   tatgaagttctcaaggaattaattaatgtagttcttaatatacaatgtctgtactgaaca 60
           |||||| |||||||||||||||| || |||||||||||||||| ||||||||||||||||
Sbjct: 202 tatgaaattctcaaggaattaatgaaagtagttcttaatataccatgtctgtactgaaca 261

                                                                       
Query: 61  tatacagaccacttatatt-tcaatctcctaaatagcaactc--attttatagcacttac 117
           ||||||||||||||||||| ||| ||||||||||| ||||||  ||   |||||| || |
Sbjct: 262 tatacagaccacttatattgtca-tctcctaaataacaactcctat---atagcagtttc 317

                                                                       
Query: 118 attacattaagtgcaaaagtaatccagagattatttaaaataaagaaggatcaggggata 177
           ||| ||||||| |||||||| |||||||||| |||||||||||||||||||||||  | |
Sbjct: 318 attgcattaagggcaaaagtcatccagagatcatttaaaataaagaaggatcaggcaaga 377

                                                                       
Query: 178 tggcccagag--acaatgcca-tgtgtgtgttcaaacattcacctacaacaccagtgctt 234
           |||||||| |  | || |||| | ||| || ||| ||||||||||| |||| ||||||| 
Sbjct: 378 tggcccaggggta-aa-gccaat-tgtttggtcagacattcacctataacaacagtgctc 434

                                                                       
Query: 235 atgattttgggaggggcagagacaggaagatgactgtggcttcctgaaagttagtctcac 294
           | |||   ||||||||||||||||| |||| |||||||||||||||||||  || |||||
Sbjct: 435 aggatg--gggaggggcagagacagaaagaagactgtggcttcctgaaagcaagcctcac 492

                                                                       
Query: 295 tacc-agctcagcaagaaacccagtcacaaggggataagttatggagcaaaagagtagat 353
           | || || |||||||||||||| |||| ||||| | || ||| ||||  || ||| ||| 
Sbjct: 493 t-cctaggtcagcaagaaaccctgtcataagggaacaaattagggagtgaaggagcagaa 551

                                                                       
Query: 354 cacactatacccttccctagcctctgaacttacctgtacagttctctatgcagactcaca 413
           |||||| |||| |||||| ||||||||| |||||||||||| ||| |||||| || ||||
Sbjct: 552 cacactgtacctttccctggcctctgaatttacctgtacaggtctgtatgcacacacaca 611

                                                                       
Query: 414 taaatatgattaaaatatgcaagaggttattttgtatagcttatat-tcaaaagcaatgt 472
           |||||||||||||| ||| |||||||||| |||| |||| |||||| | |||||||||||
Sbjct: 612 taaatatgattaaagtatacaagaggttactttgcatagattatatgt-aaaagcaatgt 670

                                                                       
Query: 473 tgttttagactagaaacctgaggacttt-atatcattatagttcctggagcaaactccca 531
           |||||||| ||||| ||||||||||||| |||||||||  | ||||||||||||||||| 
Sbjct: 671 tgttttagcctagagacctgaggacttttatatcattaggggtcctggagcaaactcccc 730

                                                                       
Query: 532 agatatagatga---tgggtatatcttcttactgtgcaaagaaaacctcagtcaagtgtg 588
           | ||||||| ||   |||||||||||||||||||||||||| |||||||||| |||||||
Sbjct: 731 atatataga-gagaatgggtatatcttcttactgtgcaaaggaaacctcagttaagtgtg 789

                                    
Query: 589 tgtgtcagtgactccaaacagcttt 613
           |||||||||||||||||||||||||
Sbjct: 790 tgtgtcagtgactccaaacagcttt 814


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: 11
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: 613
Length of database: 1014
Length adjustment: 10
Effective length of query: 603
Effective length of database: 1004
Effective search space:   605412
Effective search space used:   605412
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)