BAC Information

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BAC

Clone NameMSMg01-500J09
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 nameMSMg01-500J09.T7 (MSMg01no500_j09.b1)MSMg01-500J09.TJ (MSMg01no500_j09.g1)
ACCAG576391AG576392
length654698
length of high quality
(start - end)		284 (302 - 585)537 (65 - 601)
definitionCHROMAT_FILE: MSMg01no500_j09.b1 PHD_FILE: MSMg01no500_j09.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:27:14 2005CHROMAT_FILE: MSMg01no500_j09.g1 PHD_FILE: MSMg01no500_j09.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:27:15 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
GACTCACTATATTTCGAGGATCCGCGGAATTCACTCCTTTTCCTCCCATT
CTCGGGGTGTAATAGTGGGGTGATGGGCAAGCAATGAATCAGGAGCTGTC
ATGCCATATCAGGTGCTGAAACGTCTCGCTGCTGGTTATAAAAGCAGTGC
CATTTTCCCGGATCGGGATCTTCCTGAGAAGCAAGCAATAAAGCTCTTGC
TGAGGAAGATTCTGGTTTGTTGCATCTTTCATGCTGGTCGAGCTGGACGC
AATAAGTGGTGCCAAAACCCGGGAACTGTCATCACACCAGCTGTTTTGTG
AAGATCCCTCATTCACGGGGCAGAATCAGAACTGTGGGACAAAAGGCTCT
ACAAGGTACGTACAATCTTGAAATTTCTCCAGAGTTAGAAGCCCTTTTGA
TTGTTTGCATGGCGATTACACTTTTCCTTTTGGTTTCGTTTTGTTTCCAC
CACTGGAACTGTTGACTGGTTCTTAGTCACAGTCAGGCCTGGACAGCACC
TGGACAGCAACCAATTTCAGGCCCCGTCAGGCCTGGACAGCGGCAGTATG
GGAATCTCCCATTCTATAGTAGTGGGCTTACGCTCAGTCCTGAAGCAGTG
TGGCCTAAAAATCGCCACTAAGACCTAAGAGGGATTTTGTCAGAGAGATA
GACT

GGGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXTAGGTCCATAGCATTTGAGACAACTGGTCCTGTCAG
CCTCCTTCAGTCTTTCTCAAATTAAACCAATGGTTGTGCTGATTCTGTCC
ATTGGTTGTTTGCATACATCTGCATCTGACTGTTTCACCTGCTCATTATT
TCTTCATAAGTACAGTCATCCTAGCATTCATATTACAAGTATCTGAATTC
AGAAACATACAGAGGCTGTGTACTGCAAGCAGGTCTTCTGCAAAAGCAAT
ATATAATATAAGTACTAAAATTGATATCAGTGCTCTACAATATTCTATTC
TATGTGATGAAATCTCTCTCTCTCTTTCTCTCTCTCTCTCAATATATATA
TTCCTCTAACACTTAGTATGAATAAAAATACTCTTATATTCTCTCCTACA
AAGGAGATGATATTGGCATGTCATCTGCAACATTCATTCACTTTCCTACA
CAGTTTGTGCTTTCTCTTATCAATCAACTAATATCTAAATCACACATGCA
CTCAGATTACAAAGAAAGGTATCTGAGCTCATACAAACTGTTATTCTGAG
TCAGAGTAGTTGGAGGACAATTCCAAACTGTAGTTACGTCCAAGAGCATG
GACTTTAACAACTTGTGAATCATTAAAAGAACCATGTATATATGCTTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no500_j09.g1 MSMg01no500_j09.g1 CHROMAT_FILE:
MSMg01no500_j09.g1 PHD_FILE: MSMg01no500_j09.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:27:15 2005
         (537 letters)



>mm_chrY_1271588_1272523
          Length = 936

 Score =  424 bits (219), Expect = e-122
 Identities = 444/545 (81%), Gaps = 57/545 (10%)
 Strand = Plus / Plus

                                                                       
Query: 33  tcagcctccttcagtctttctcaaattaaaccaatggttgt--gctgattctgtccattg 90
           |||||||||||||||||||||| |||| ||||||  ||| |  || |||||||||| |||
Sbjct: 209 tcagcctccttcagtctttctccaattcaaccaa-agtt-tcagcagattctgtccgttg 266

                                                                       
Query: 91  gttgtttgcatacatctgcatctgactgtttcacctgctcattatttcttcataagtaca 150
           |||| ||||| |||||||||||||| |||||| |||||||||||  |||||| |||| ||
Sbjct: 267 gttggttgcagacatctgcatctgattgtttcgcctgctcattaggtcttcagaagtgca 326

                                                                       
Query: 151 gtcatcctagcattcatattacaagtatctgaattcagaaacatacagaggctgtgtact 210
           ||||| |||| ||||| ||||||| ||| ||||||||||||| | |||||||||  ||||
Sbjct: 327 gtcatgctagtattcacattacaaatatgtgaattcagaaacctgcagaggctgcctact 386

                                                                       
Query: 211 gcaagcaggtcttctgcaaaagcaat-----atataatataagtactaaaattgatatca 265
           |||| |||||||||||||||||||||     |||||| |||   ||| || ||  | |||
Sbjct: 387 gcaatcaggtcttctgcaaaagcaatacacgatataa-ata---actgaattttctgtca 442

                                                                       
Query: 266 gtgctctacaatattctattctatgtgatga------------aatctctctctctct-- 311
           |||||||||||     |||||||||||||||            |||||||||||||||  
Sbjct: 443 gtgctctacaa-----tattctatgtgatgaaatctctctctcaatctctctctctctct 497

                                                                       
Query: 312 ---------------t-tctctctctctctcaatatatatattcctctaacacttagtat 355
                          | |||||||||||||||  |||| || || |||||||||||||||
Sbjct: 498 ctctctctctctctctctctctctctctctca--atatctactcttctaacacttagtat 555

                                                                       
Query: 356 gaataaaaatactcttatattctctcctacaaaggag-atgatattggcatgtcatctgc 414
           ||||||  || ||||||| |||||| ||||| ||| | |||||||||| |||||||||||
Sbjct: 556 gaataatgattctcttatcttctctgctacatagg-gcatgatattggaatgtcatctgc 614

                                                                       
Query: 415 aacattcattcactttcctacacagtttgtgctttctcttatcaatcaactaatatctaa 474
           ||||||||||||||||||||| |||||||||||||||||||  |||||||||||||| ||
Sbjct: 615 aacattcattcactttcctactcagtttgtgctttctcttaggaatcaactaatatc-aa 673

                                                                       
Query: 475 a-tcacacatgcactcagattacaaaga-aaggtatctgagctcatacaaactgttattc 532
           | |||||||| ||||||||||||||| | ||||||||| |||||||| || |||||||||
Sbjct: 674 agtcacacattcactcagattacaaa-ataaggtatcttagctcatataa-ctgttattc 731

                
Query: 533 tgagt 537
           |||||
Sbjct: 732 tgagt 736


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: 25
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: 537
Length of database: 936
Length adjustment: 10
Effective length of query: 527
Effective length of database: 926
Effective search space:   488002
Effective search space used:   488002
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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