BAC Information

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BAC

Clone NameMSMg01-105E02
ChromosomeY (Build37)
Map Location 1,593,176 - 1,593,527
singlet/doubletsinglet
Overlap geneLOC667137
Upstream geneDdx3y, LOC100042763, LOC385246, Usp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2
Downstream geneLOC100039373, LOC100039381, LOC667143, LOC100039401, LOC100039430, Vmn2r-ps137, LOC100039450, LOC547210, Ube1y1-ps1, Sry, LOC100042840, LOC100042849, LOC620228, LOC667181, Rbmy1a1, LOC667189, LOC100042874, LOC667194, LOC100042881, LOC667201, LOC100039546, Rhoay-ps2, LOC100039568, LOC100041505, LOC100039581, LOC676356, LOC667217, LOC100039613, LOC100041537, LOC667227, LOC667236
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-105E02.T7 (MSMg01no105_e02.b1)MSMg01-105E02.TJ (MSMg01no105_e02.g1)
ACCAG319659AG319660
length703692
length of high quality
(start - end)
402 (71 - 472)338 (77 - 414)
definitionCHROMAT_FILE: MSMg01no105_e02.b1 PHD_FILE: MSMg01no105_e02.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:04:50 2005CHROMAT_FILE: MSMg01no105_e02.g1 PHD_FILE: MSMg01no105_e02.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:04:50 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
AGTCAATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCCAAATTAATACCCACTGAATGGCTGAGAAGCACCTCATAAATGT
TCAAAATCCTTAATCATCAGGGAACAGAAAGTCAAAATAACCCTAAGATT
CCACCTCACAGAGTCAGAATGGCTAAGATCTAAAACCCAGATGACAATAG
TTGCTGGTGGGTATGTGGTGAAGTAGGAACACTCCTCTGTTGCTTGTGGA
ATTGCAAGTTGGTACTACCACTCTGGAAAGCAGATGGGGTTTCCTCAGAA
AAGTGGTAATAGTTCTACTGAAGATCCAGCAATAGTCCTCCTTGGCATAT
ATCCAGAAGATATTCCAACTTGTAATAAGGATACATGCATCACTATGTTC
ATAGCATCCTTATTTATAATAGCAAGAAGCTGATAATAAACCTGATGCCC
GTCTTCAGAGGAATGAATACAGAACATATAGCACATTTACCTAATGAAAT
ACTACTTTACTATTAAAATCACTGAATTCATGAAATTCTTAGACAAATGG
ATGGATCTGGATGACATGGTTCCTAAGTGAGATTACTCCTTCTCAAAACA
AAGCTCATTGATATATATTCCCTGATAAGTGTATGTTATCCTTGAAGCTC
AAAATAAAACCACGGTAAATTTGCTAAACCCCATGTTCCCCTTCTTGTAC
GCA
CCTTCGATGAAGTGCGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXATATATATGACAGAGGCAACAGCA
TTGTGTCTGGCGTAAACGGGCAAGATCTTCAGTCCCAGGCAATGGGCAAG
TATGATATTTGAAGAGAATGGAAGCCACTTAGACAGTGTGATCTAGCACA
ACAGGTCTACAGCCAGGTAGAAGACAATACCTCTGAAGAGTCTGAGCATG
ACATCACTCAAGAAGAAGAGTAGGAGGAAGCCTTCTTCCCAGGCCCTGGG
GAATATTGTTGGCTGCAGAATTTCTCACGGGTGGAAGCAAGGTAATGAGC
CTGTCACCCATTGGAAGGCCATCATTCTAGGTCAACTGCCAACAAACCCT
TCTCTTTATTTGGCGAAGTATGACGGAATTGACAGTGTCTACGGACAGGA
GCTCCACAGCGATGAGAGGATTTTTAAATCTTAAGGTCTTGCCTCCCAAA
GTAGTTCTTTCCTCAGGTGAGGGATGTCTTCCTCGTTTGCGCCTTGTCTT
GCTGATAGGTACACCCATATTTGAGGCCAAAGATGGTTCCGATGACTACT
GTACCGGTATGGTGCTAGCCTCCGTTCCCTTTTTTTCGGACTCATTTTTC
TTTTTTCTAAATAAACGATCCTTCCCCCCTACTTCTATCCCC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no105_e02.g1 MSMg01no105_e02.g1 CHROMAT_FILE:
MSMg01no105_e02.g1 PHD_FILE: MSMg01no105_e02.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:04:50 2005
         (338 letters)



>mm_chrY_1592856_1593593
          Length = 738

 Score =  350 bits (181), Expect = e-101
 Identities = 305/355 (85%), Gaps = 21/355 (5%)
 Strand = Plus / Minus

                                                                       
Query: 1   atatatatgacagaggcaacagcattgtgtctggcgtaaacgggcaagatcttcagtccc 60
           ||||||||| |||||||||||||||||| |||||  |||| |||||||||| |||  | |
Sbjct: 672 atatatatggcagaggcaacagcattgtatctggtttaaatgggcaagatcgtcaaacgc 613

                                                                       
Query: 61  aggcaatgggcaagtatgatatttga--agagaatgga-agccacttagacagtg----- 112
           ||||||||||||||| ||||| ||||  | ||||| || ||||||  ||||||||     
Sbjct: 612 aggcaatgggcaagtttgatacttgaacacagaat-gatagccac-aagacagtggacca 555

                                                                       
Query: 113 ----tgat-----ctagcacaacaggtctacagccaggtagaagacaatacctctgaaga 163
               || |     ||| |||| |||||||||||||| ||||||| |||||||||||||||
Sbjct: 554 gggttgctgtggcctaccacaccaggtctacagccatgtagaaggcaatacctctgaaga 495

                                                                       
Query: 164 gtctgagcatgacatcactcaagaagaaga-gtaggaggaagccttcttcccaggccctg 222
           | |||||||||||||| ||||||||||||| | ||||||||||||||||||||||| |||
Sbjct: 494 ggctgagcatgacatccctcaagaagaagacg-aggaggaagccttcttcccaggctctg 436

                                                                       
Query: 223 gggaatattgttggctgcagaatttctcacgggtggaagcaaggtaatgagcctgtcacc 282
            ||||||||||  |||||||||||||||| || |||||| ||||||||||||||||||||
Sbjct: 435 aggaatattgtcagctgcagaatttctcatggttggaaggaaggtaatgagcctgtcacc 376

                                                                  
Query: 283 cattggaaggccatcattctaggtcaactgccaacaaacccttctctttatttgg 337
           ||||||||||||||  |||||||||||||||||||||||||||||||||||||||
Sbjct: 375 cattggaaggccattgttctaggtcaactgccaacaaacccttctctttatttgg 321


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: 5
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: 338
Length of database: 738
Length adjustment: 9
Effective length of query: 329
Effective length of database: 729
Effective search space:   239841
Effective search space used:   239841
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)