BAC Information

Click to search

BAC

Clone NameMSMg01-279E09
ChromosomeY (Build37)
Map Location 1,649,933 - 1,650,558
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143
Downstream geneLOC100039401, 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, EG631479, LOC667244
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-279E09.T7 (MSMg01no279_e09.b1)MSMg01-279E09.TJ (MSMg01no279_e09.g1)
ACCAG416679AG416680
length748749
length of high quality
(start - end)		704 (45 - 748)673 (77 - 749)
definitionCHROMAT_FILE: MSMg01no279_e09.b1 PHD_FILE: MSMg01no279_e09.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:19:49 2005CHROMAT_FILE: MSMg01no279_e09.g1 PHD_FILE: MSMg01no279_e09.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:19:50 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCTCAAGGTACCAATCAGTGTTCAATTTCTGATCAATAGTGCTTCAGA
CATAGGAATAACAGGACAAAATTATTCTATACAATCCTATGAAGCTCCTA
TCACCATCCTCCTATTTTAGAGAATCTTAGATCTATCACCAATCCTGAGA
CGGGCAGAAACAATTCTTCTCCTGCACATAGGGATACTGCATATGTCTCT
CCTTGCCCAAAGTATTCCAATTACTGTCTTTTTACTGAATTTGCTTTTAG
ACTATACCTGAAATATTCCACTTTTCACCAAAAGATATACCAGCCCTCCC
TGTTCTAATAGAGAGCTACCGTCCACCAATATCCAAAGGGTTCTCAGACA
TTCTAAATATGCCCCTGTGGGAGTAAACTTACTAAGTCTATTTAATTGGG
CTTCAGATCCTTCTGCTTTGACCAAAAAGATTTCAATCTACTGACTCTGA
GTTACCAGGGGCCTCAGATCTCATTTTCCCCAAGTGGTCATCAAATATGC
CTTTCTGACCAATAATGACCTTGCAATGTTCTCCTCTGATGGAGACACTT
AGTCACCCCCTCCTCTAATTTTAACTCCCAAATGGACCTCCAGACCACCC
AAGCTTAAATTACCTGAGCCGAACATTAAGAAGTACAGCCCAGAACAAAA
CCTCATTTCCTCAATGCAGAAACTAAAATGATGTATTCCTCACGATTC

CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXAGAAAACTGCAGAGGTTGCTTACT
GCAAGAAGGTATTCTGCAAAAGCAATAGATGATAAAAGTACTGAAATATC
TATCAGTGCTCTACAATATTATATTCTAGGTGATGAAATTTCTCTTTCTC
TCTGTCTCTGTGTCTCTGTGTCTCTGTCTCTATCTCTATGTCTGTCTGTC
TGTTTGTCTCTCTCTCTCAATTTCTACTTCTCTAATACTTATTATGAATT
ATGATTCTTTTATCTTATTCCCTCCAATGGGAATGATATTGGAATGGCAT
CTGTAACATTCATTCACATTCCTACACAATTTGTGCTTTCTATTAACAAT
CAACTAATATCAAAGTCACACATTCACTCAGATTACAAAATAAGATATCT
GAGCTCATGTAAAGTGATATTCTGAATCAGAGTAGGGGAAGGGCACTTCC
AATGTGTAGTTTCACTCAAGAGCATGGCTTTTAAGAACTGGTCAATTGGA
AGAAGATGAGACAATGTATAGAAGAGGGTGTTTCTTTTGGTTTAGTTTGG
TTTAGCTTTGTTTCTTTAGGTTACCCACAGTCATTTTAAGAAACATTGAG
AAACACTGTTTATTACCGATATCTTGAACTGAATGTGAATAGGTCCCTTA
GAACAACGTTATATTTCTCAGTTACAATATGCAATATATTTTTGATATT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no279_e09.g1 MSMg01no279_e09.g1 CHROMAT_FILE:
MSMg01no279_e09.g1 PHD_FILE: MSMg01no279_e09.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:19:50 2005
         (673 letters)



>mm_chrY_1649694_1650764
          Length = 1071

 Score =  379 bits (196), Expect = e-109
 Identities = 541/684 (79%), Gaps = 75/684 (10%)
 Strand = Plus / Plus

                                                                       
Query: 1   agaaaactgcagaggttgcttactgcaagaaggtat-tctgcaaaagcaatag--atgat 57
           ||||| |||||||| |||| |||| |||| |||| | | ||||||||||| ||  ||  |
Sbjct: 240 agaaacctgcagagattgcatactacaagcaggtctgt-tgcaaaagcaaaagacat--t 296

                                                                       
Query: 58  aaaagtactgaaatatctatcagtgctctacaatattatattctaggtgatgaaatttct 117
           | ||||||||||||||||||||||| ||||||||||| | |||||||||||||||     
Sbjct: 297 ataagtactgaaatatctatcagtgttctacaatattcttttctaggtgatgaaa----- 351

                                                                       
Query: 118 ctttctctctgtctctgtgtctctgtgtctctgtctctatctctatgtctgtctgtctgt 177
             |||||||  ||||    ||||    ||||  ||||  ||||            ||   
Sbjct: 352 --ttctctc--tctc----tctc----tctc--tctc--tctc------------tc--- 380

                                                                       
Query: 178 ttgtctctctctctcaatttctacttctctaatacttattatgaattatgattcttttat 237
              |||||||||||||||  ||||| |||||| || || ||||||| |||||||| ||||
Sbjct: 381 ---tctctctctctcaataactactcctctaacacatagtatgaatgatgattctcttat 437

                                                                       
Query: 238 cttat-tccctc-caatgggaatgatattggaatggcatctgtaacattcattcacattc 295
           ||| | |  ||| ||| |||  ||||||||||| | |||||| ||||||||||||| |||
Sbjct: 438 cttctgt--ctcacaaaggggttgatattggaacgtcatctgcaacattcattcactttc 495

                                                                       
Query: 296 ctacacaatttgt-gctttctattaacaatcaactaatatcaaagtcacacattcactca 354
           ||||||| ||| |  |||||| ||| ||||||||||||||||||||||||||||||||||
Sbjct: 496 ctacacagttt-tcactttctcttagcaatcaactaatatcaaagtcacacattcactca 554

                                                                       
Query: 355 gattacaaaataagatat--ctgagctcatgtaaagtgatattctgaatcagagtagggg 412
           |||||||||||||| |||  |  |||||||||||| || |||||||||| ||||||||| 
Sbjct: 555 gattacaaaataaggtattcc--agctcatgtaaactgttattctgaattagagtaggga 612

                                                                       
Query: 413 aagggcacttccaatgtgtagtttcactcaagagcatggcttttaagaactggtcaattg 472
           || | |||||||||||| |||||  || |||||||||||| ||||| ||||||| |||  
Sbjct: 613 aaagacacttccaatgtatagttaaacccaagagcatggcctttaaaaactggtgaatca 672

                                                                       
Query: 473 gaagaagatgagacaatgtatagaag-agggtgtttcttttggtttag-tttggtttagc 530
           | ||||||| |||||||||||||||| ||  ||||||||||||||| | |||||||||||
Sbjct: 673 gtagaagattagacaatgtatagaagcagt-tgtttcttttggttt-gatttggtttagc 730

                                                                       
Query: 531 tttgtttcttt-aggttacccacagtcattttaag-aa-acattgagaaacactgtttat 587
           ||||||| ||| || ||||||| | |||||  ||| || |||   ||||||| |||||| 
Sbjct: 731 tttgtttattttag-ttacccagaatcattaaaaggaacacaa--agaaacagtgtttaa 787

                                                                       
Query: 588 taccgatatcttgaact-gaatgtg--aataggtcccttagaacaacgttatatttctca 644
           | || ||||||| |||| ||   ||  ||||||| | ||| || |   ||||||||||||
Sbjct: 788 tgcctatatcttcaactaga---tgcaaataggttcattacaata---ttatatttctca 841

                                   
Query: 645 gttacaatatgcaatatat-tttt 667
           |||| |||||  ||||||| ||||
Sbjct: 842 gttaaaatatataatatatatttt 865


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: 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: 673
Length of database: 1071
Length adjustment: 10
Effective length of query: 663
Effective length of database: 1061
Effective search space:   703443
Effective search space used:   703443
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)


| Home | SequenceCutter | Blast | Download |