BAC Information

Click to search

BAC

Clone NameMSMg01-306O04
ChromosomeY (Build37)
Map Location 1,655,825 - 1,656,469
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 nameMSMg01-306O04.T7 (MSMg01no306_o04.b1)MSMg01-306O04.TJ (MSMg01no306_o04.g1)
ACCAG431414AG431415
length763791
length of high quality
(start - end)
673 (47 - 719)295 (75 - 369)
definitionCHROMAT_FILE: MSMg01no306_o04.b1 PHD_FILE: MSMg01no306_o04.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:47:47 2005CHROMAT_FILE: MSMg01no306_o04.g1 PHD_FILE: MSMg01no306_o04.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:47:48 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
CTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCAAAACAAATTTCTCTCTTCAATCTGTCTCACCAATCATACATTA
GGTCAAATGCTTGGGTGCTTTCTGCCTCAGGCTCACAATGATCAATGGTA
TATACTTTCTAGGTTGTATAACTGCACTTCATTTCTCTACAGGAACCTTT
CCTCAGATTCTGTCCTCATCAAGAATCCCATCTAATACCATCAGACACTT
CTATGCATCAGAGGGAACAAGGTCTAGCTGTGTGCCTTGCAGGTTGGGTA
GAGCACTGTCAATATCCCTTCTCCTCCAGCAAACCCTCTCAAGGCTCACA
ACGGTTGTCTTCCAGGATAAAATCTGATTGCCTAAGAGAAGGAGCAAATC
ATCTCTGCTTGCTCTAATGTCTAAATGACATTGCAGATTAAGAAAAAACC
TAGAGCTTCCCCAAGATTCTCAGTCCGGGAGCATTTGGACAATCCATTAC
TTTCATAGGGTCCAAAATTGTTTGAATTCTACAGACCAATGAATTGTCCC
ATTAGAAGCCAACTTTCCAGCAGGTAGCAGCAGCTCCAACTGTTGTCTCC
AAAGGCAGTTAAACAAAAGCAACCTGAAGAGGCAGGTGAACTGCTCCTGG
TCCCACCAAGGTGACTTTGGTTTCTGGTGGGAGGGGGCAATTACATGCTG
TGAGAACTCTGTTCTGTTGATGTGCTCACCCACCAAAACACTCCTCTTGG
GAAGACCAGGAAG
TCGATGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXTAGAGAGGTGGGTGGGAGAGTAACAT
TTTAGAGAATGGAGGGAAGTGTGGTAGGGGCCTCATGGAGGGAGTATGCT
GAAGGGGATCACATTTGAAATATAAATAAATAAAATAATTAGTAAAATTG
ATAGTATGATATAGTTTAGAATATCTTCAAAACAGGAGCATGAAAGTAAT
TGGATATAGGAAGATAAATTTAATTTTAGAGATTTTAGGTATGGTAGTCA
AAATTCTTTAAAGAAAAAACTGGAATAATTATGTGTGTGTGTGTGTGTGT
GTGTGTGTGTGTGTGTGTTTGTGTGCCCCCCCCCCCCCCNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNTTTTTAAAAAAAAAAAAAAAATGGGGGG
GGGGGGGGGGGTTTTATTGTTAGTAGATTTTTTGTGTTTGTTACTTGAAT
TTAGGTTTAGGGAAGATTGAGAGAAAACAATTGTTTATATCTTATAAGTC
TTTTAGTTTCCTTTTTCACCCACATTGTCTTTATTCATGCAGTCTTTGTT
TATCTATCTATTCTCAATTCGTACCCTTCTTACCGTAGTTTCATCTTTTC
TCGGCTTACTCGTTTTCCTCCTTCTCTCTCTTTTCCTTCTTTATTTTTTA
CTATATCCTCCTCTCTATTGTGGTTTCCGTTTTTCTCCCCAGGTAGTCTT
CTCCGTTATTCGGCTCCTGCGAGCAGCTTGCTAGAGTTCGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no306_o04.b1 MSMg01no306_o04.b1 CHROMAT_FILE:
MSMg01no306_o04.b1 PHD_FILE: MSMg01no306_o04.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:47:47 2005
         (673 letters)



>mm_chrY_1655622_1656690
          Length = 1069

 Score =  524 bits (271), Expect = e-153
 Identities = 561/667 (84%), Gaps = 34/667 (5%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcaaaacaaatttc----tctcttcaatctgtctcaccaatcatacattaggtcaa 60
           ||||||||||||||   |    | |||||||  ||||||| |||| || ||||||||| |
Sbjct: 204 gaattcaaaacaaa---caaaatgtcttcaaagtgtctcagcaattatgcattaggtcca 260

                                                                       
Query: 61  atg-cttgggtgctttctgcctcaggctcacaatgatcaatggtatatacttt-ctaggt 118
           ||| | |  ||||| || || ||||||||||   ||| |||||| |||| ||| |||  |
Sbjct: 261 atgtc-tcagtgctctcagcttcaggctcac---gattaatggtttata-tttgctacct 315

                                                                       
Query: 119 tgtataactgcacttca-tttctcta-caggaacctttcctcagattctgtcctcatcaa 176
           |||||||||||||| || ||| |||| | |||| ||| |||||||| ||||||||| |||
Sbjct: 316 tgtataactgcactacagttt-tctacctggaaacttgcctcagatcctgtcctcagcaa 374

                                                                       
Query: 177 gaatcccat-ctaataccatcagacacttctatgc-atcagagggaacaaggtctagctg 234
           | ||  ||| | || ||||||||| | |||||||| | |||||||||||| |||||||||
Sbjct: 375 ggat--catgc-aacaccatcagaaaattctatgcta-cagagggaacaaagtctagctg 430

                                                                       
Query: 235 tgtgccttgcaggttgggtagagcactgtcaatatcccttctcctccagcaaaccctctc 294
           |||||| ||||| |||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 431 tgtgccatgcagtttggttagagcactgtcaatatcccttctcctccagcaaaccctctc 490

                                                                       
Query: 295 aag-gctcacaacggttgtcttccaggataaaatctgattgcctaagagaaggagcaaat 353
           ||  |||||||| | |||||||||| || ||| ||||| ||||||| |||||||||||| 
Sbjct: 491 aaatgctcacaaagtttgtcttccaagacaaa-tctgagtgcctaaaagaaggagcaaag 549

                                                                       
Query: 354 catctctgcttgctctaatgtctaaatgacattgcagattaagaaaaaacctag-agctt 412
           ||||||  ||||||| ||| |||||||| ||||||||||||||||||  ||||| || ||
Sbjct: 550 catctccacttgctccaatatctaaatgccattgcagattaagaaaatccctagcag-tt 608

                                                                       
Query: 413 ccccaagattctcagtccgggagcatttggacaatccattactttcatagggtccaaaat 472
           |||||||||||||||||| ||||||||||| ||||| ||||||||||||||||||||| |
Sbjct: 609 ccccaagattctcagtccaggagcatttgggcaatctattactttcatagggtccaaact 668

                                                                       
Query: 473 tgtttgaattctacagaccaatgaattgtcccattagaagccaactttccagcaggtagc 532
           |||||||||||| |||||||||| ||||| ||||||||||||||||  ||||||||||||
Sbjct: 669 tgtttgaattctgcagaccaatgcattgttccattagaagccaactcaccagcaggtagc 728

                                                                       
Query: 533 agcagctccaactgttgtctccaaaggcagttaaacaaaagcaacctgaagaggcaggtg 592
           ||| |||||||||| ||||||||| ||||  ||||||||||||       ||||||||||
Sbjct: 729 agctgctccaactgctgtctccaatggcacctaaacaaaagca-------gaggcaggtg 781

                                                                       
Query: 593 aactgctcctggtcccaccaaggtgactttggtttctggtgggagggggcaattacatgc 652
           | ||  |  ||||||||||||||||||||||  ||||| | ||||  |||| |||| |||
Sbjct: 782 atcttataatggtcccaccaaggtgactttgacttctgttaggagcaggcacttacctgc 841

                  
Query: 653 tgtgaga 659
           |||||||
Sbjct: 842 tgtgaga 848


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: 1069
Length adjustment: 10
Effective length of query: 663
Effective length of database: 1059
Effective search space:   702117
Effective search space used:   702117
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)