BAC Information

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BAC

Clone NameMSMg01-401C12
ChromosomeY (Build37)
Map Location 1,271,796 - 1,272,323
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 nameMSMg01-401C12.T7 (MSMg01no401_c12.b1)MSMg01-401C12.TJ (MSMg01no401_c12.g1)
ACCAG500608AG500609
length760756
length of high quality
(start - end)
523 (77 - 599)252 (327 - 578)
definitionCHROMAT_FILE: MSMg01no401_c12.b1 PHD_FILE: MSMg01no401_c12.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:14:42 2005CHROMAT_FILE: MSMg01no401_c12.g1 PHD_FILE: MSMg01no401_c12.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:14:43 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
NTTTTATAATTTGCGGGCGCTATACGAATCACTATTTCAATAACATCCGC
GGAATTCTAGGTCTTTCCCATTTGAGACAACTGGTCCTGTCAGCCTCCTT
CAGTCTTTCTCAAATTAAACCAATGGTTCTGCTGATTCTGTCCATTGGTT
GTTTGCATACATCTGCATCTGACTGTTTCACCTGCTCATTATTTCTTCAT
AAGTACAGTCATCCTAGCATTCATATTACAAGTATCTGAATTCAGAAACA
TACAGAGGCTGTGTACTGCAAGCAGGTCTTCTGCAAAAGCAATATATAAT
ATAAGTACTAAAATTGATATTTTTGCTCTACAATATTCTATTCTACGTGA
TGAAATCTCTCTCGCTCTTTCTCTCTCTCTCTCTCTCAATATATATATTC
TTCTAACACTTAGTATGAATAAAAATTCTCTTATATTCTCTCCTACAAAG
GAGATGATATTGGCATGTCATCTGCAACATTCATTCACTTTCCTACACAG
TTTGTGCTTTCTCTTAGCAATCAACTAATATCTAAATCACACATGCACTC
AGATTACAAAGTAAGGTATCTGAGCTCATACAAACTGTTATTCTGAGTCA
AAGTAGTTGGAGGACAATTCCTAACTGTAGTTACGTCCAAGAGCATGGAC
CTTAACAACTTGTGAATCAGCAGAAAGACAATGTGTAGATGCGCTTGTTT
CCTTTGGTTGGTTTGGTTTACTTAATTGGGGGTCCCCCCACCCTTATAAA
AAAAACAAAA
NCCGATGAAGTGGTAGGNCTGGNGGNCGCCTGGTTCAAACACTAGGNGAA
CTATAGAAGGTTTCAAAAAATCACTCCTAGNCACTCCCATTCTCAGGGTG
AAATAGTCAGGTGATGGGCACCCAATGAATCAGGAGCTGTCATGCCATAT
CAGGTGCTGAAATGTCACGCTGCAGGTTATAAAAGCAGCGCCATTTTCCC
GGTTCGGGATCTTCCTGATAAGCAAGCAATAAAGCTCTTGCTGTGGAAGA
TTCTAGTTTGTTGTATCTTTCTTGCCGGTCGAGCGGGACGCAATAGTGAA
TAGCTTTTACTTCCCTGTTNGTTTCTCTCCTAGTACTGACCAGAAACTGA
GGTGCCATTTCCAGCATACTGTGCTAGGACATAGTCATAGAACACATCTT
CCTTCGAAAGCAGCTTCTAGGCTTCATTGGAAAAAACTTAAATCTGTGAA
TATTGGAAACAGAGTCTGTACATAGCTCAGGTGACAGAGTGACTGCCTAG
CATTTAGCATGCCTAGGACTCAGTGATTAGTGCTGTCTTTACTTTATTGC
CTTTGGTGGGTCTACTTATTATATTGTAATACACTTGGGATCATAGAAAG
GGATATCATGATGACCTAAGACCAAGACTGTCAATGATGTTTGGTAGAGT
CTTCTCTTGTTTTCTTCATGCTAAAAGACCTGATACCAGAGTGACTCCCT
TACTGAAAAACCCAGGTTTCCATTTCTTTCTTTTTAAGGCTCCTAATTTC
AAAAAC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no401_c12.b1 MSMg01no401_c12.b1 CHROMAT_FILE:
MSMg01no401_c12.b1 PHD_FILE: MSMg01no401_c12.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:14:42 2005
         (523 letters)



>mm_chrY_1271603_1272524
          Length = 922

 Score =  456 bits (236), Expect = e-132
 Identities = 448/544 (82%), Gaps = 51/544 (9%)
 Strand = Plus / Plus

                                                                       
Query: 14  tcagcctccttcagtctttctcaaattaaaccaatggttctgctgattctgtccattggt 73
           |||||||||||||||||||||| |||| |||||| | ||| || |||||||||| |||||
Sbjct: 194 tcagcctccttcagtctttctccaattcaaccaaagtttcagcagattctgtccgttggt 253

                                                                       
Query: 74  tgtttgcatacatctgcatctgactgtttcacctgctcattatttcttcataagtacagt 133
           || ||||| |||||||||||||| |||||| |||||||||||  |||||| |||| ||||
Sbjct: 254 tggttgcagacatctgcatctgattgtttcgcctgctcattaggtcttcagaagtgcagt 313

                                                                       
Query: 134 catcctagcattcatattacaagtatctgaattcagaaacatacagaggctgtgtactgc 193
           ||| |||| ||||| ||||||| ||| ||||||||||||| | |||||||||  ||||||
Sbjct: 314 catgctagtattcacattacaaatatgtgaattcagaaacctgcagaggctgcctactgc 373

                                                                       
Query: 194 aagcaggtcttctgcaaaagcaatatataatataagtactaaaattgatatttt------ 247
           || |||||||||||||||||||||| |  ||||||     | || ||| |||||      
Sbjct: 374 aatcaggtcttctgcaaaagcaatacacgatataa-----ataactga-attttctgtca 427

                                                                       
Query: 248 -tgctctacaatattctattctacgtgatga------------aatctctctcgctct-- 292
            ||||||||||||||||||     |||||||            |||||||||| ||||  
Sbjct: 428 gtgctctacaatattctat-----gtgatgaaatctctctctcaatctctctctctctct 482

                                                                       
Query: 293 -----------t-tctctctctctctctctcaatatatatattcttctaacacttagtat 340
                      | |||||||||||||||||||  |||| || ||||||||||||||||||
Sbjct: 483 ctctctctctctctctctctctctctctctca--atatctactcttctaacacttagtat 540

                                                                       
Query: 341 gaataaaaattctcttatattctctcctacaaaggag-atgatattggcatgtcatctgc 399
           ||||||  |||||||||| |||||| ||||| ||| | |||||||||| |||||||||||
Sbjct: 541 gaataatgattctcttatcttctctgctacatagg-gcatgatattggaatgtcatctgc 599

                                                                       
Query: 400 aacattcattcactttcctacacagtttgtgctttctcttagcaatcaactaatatctaa 459
           ||||||||||||||||||||| |||||||||||||||||||| |||||||||||||| ||
Sbjct: 600 aacattcattcactttcctactcagtttgtgctttctcttaggaatcaactaatatc-aa 658

                                                                       
Query: 460 a-tcacacatgcactcagattacaaagtaaggtatctgagctcatacaaactgttattct 518
           | |||||||| ||||||||||||||| |||||||||| |||||||| || ||||||||||
Sbjct: 659 agtcacacattcactcagattacaaaataaggtatcttagctcatataa-ctgttattct 717

               
Query: 519 gagt 522
           ||||
Sbjct: 718 gagt 721


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: 24
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: 523
Length of database: 922
Length adjustment: 10
Effective length of query: 513
Effective length of database: 912
Effective search space:   467856
Effective search space used:   467856
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)