BAC Information

Click to search

BAC

Clone NameMSMg01-309O06
ChromosomeY (Build37)
Map Location 1,266,153 - 1,266,741
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 nameMSMg01-309O06.T7 (MSMg01no309_o06.b1)MSMg01-309O06.TJ (MSMg01no309_o06.g1)
ACCAG433551AG433552
length732749
length of high quality
(start - end)
318 (45 - 362)588 (77 - 664)
definitionCHROMAT_FILE: MSMg01no309_o06.b1 PHD_FILE: MSMg01no309_o06.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:51:35 2005CHROMAT_FILE: MSMg01no309_o06.g1 PHD_FILE: MSMg01no309_o06.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:51:35 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCATTAAAAACGAACTGAAAACCAGTCTTCATTTACCTCTACCTGTTG
TTAAAATGGCAGATTCCCGAAATTTCTATGTATAGGCTCCAATTGCCTCA
AAATACAGAGGCTCCTCTCAGCCTCAGAAGTGCTGGGACTTCAGACATAA
TTCAGGCCAGGTTGTTGTTATTTATTTGTTGTTTTGTTTTAGGACAGTAA
GCTCTAACTCTATATCTCAGGATTGTCTGAAACCTCACCTGCAGCTTTGA
CTGGCCTTGAAACTGAAGTCCCCAGCCTTACAAATGTACCTGGGCCTGAG
GAAATATGTGTTCTTTATCCTCCCACCCCCCAAAATTTGTTTGTTTGTTT
GTTTGTTTGTTTTTCACCCCCCACAAACAAAGATGAAGATTGAAGCCAGA
GCTTCTTGCTGTAGCAGTAACATATTTGTCCAGCCAGAAAAACTTTATAT
TTTATATCTGCTTTACATTTGCATTATGATGAAAAAAAATGAGGAGCTTG
GATTATGATAAAGTAATTACGATTTCATTTGGAAATTGTGACGCCCCACA
TTTACTCTAATTTACTCAAACCCTATTTTTTATGCTTTTTCACATCTATA
TCAACGCGTGTTTTGTTTATATTCTCTCTCTCTATCCCCGATATATGCTC
CCTCACTCCTTTATATATACCGTTTTTCTCCG
CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXCATCAAAAAAAATGTATGAAGTTC
TCAAGGAATTAATTAATGTAGTTCTTACTATACAATGTCTGTACTGAACA
TATACAGACCACTTATATTTCAATCTCCTAAATAGCAACTCATTTTATAG
CACTTACATTACATTAAGTGCAAAAGTAATCCAGAGATTATTTAAAATAA
AGAAGGATCAGGGGATATGGCCCAGAGACAATGCCAGGAGTGTGTTCAAA
CATTCACCTACAACACCAGTGCTTAAGATTTTGGGAGGGGCAGAGACAGG
AAGATGATTGTGGCTTCCTGAAAGCCAGGCTCACTACCAGCTCAGCAAGA
AACCCAGTCACAAGGGGACACCCCATGGAGGAAAAGAGTAGATCACACTA
TACCCTTCCCTAGCCTCTGAACTTACCTGTACAGTTCTCTATGCAGACTC
ACATAAATATGATTAAAATATGCAAGAGGTTATTTTGCATAGCTTATGTT
CAAAAGCAGTGTTGTTTTAGACTAGAAACCTGAGGACTTTATATCATTAT
AGTTCCTGGAGCAAACTCCCAAGATATAGATGATGGGTATATCTTCTTAC
TGTGCAAAGGAAACCTCAGTTAAGTGTGTGTGTCAGTGACTCCAAACAGC
TTTCCTCCTCTATGTTCCTTTATATAGCATAGAATGATCTGTAAATAAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no309_o06.g1 MSMg01no309_o06.g1 CHROMAT_FILE:
MSMg01no309_o06.g1 PHD_FILE: MSMg01no309_o06.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:51:35 2005
         (588 letters)



>mm_chrY_1265953_1266941
          Length = 989

 Score =  489 bits (253), Expect = e-142
 Identities = 511/607 (84%), Gaps = 37/607 (6%)
 Strand = Plus / Plus

                                                                       
Query: 1   catcaaaa-aaaatgtatgaagttctcaaggaattaattaatgtagttcttactatacaa 59
           |||||||| | | |||||||| |||||||||||||||| || |||||||||| ||||| |
Sbjct: 201 catcaaaatatattgtatgaaattctcaaggaattaatgaaagtagttcttaatatacca 260

                                                                       
Query: 60  tgtctgtactgaacatatacagaccacttatatt-tcaatctcctaaatagcaactc--a 116
           |||||||||||||||||||||||||||||||||| ||| ||||||||||| ||||||  |
Sbjct: 261 tgtctgtactgaacatatacagaccacttatattgtca-tctcctaaataacaactccta 319

                                                                       
Query: 117 ttttatagcacttacattacattaagtgcaaaagtaatccagagattatttaaaataaag 176
           |   |||||| || |||| ||||||| |||||||| |||||||||| |||||||||||||
Sbjct: 320 t---atagcagtttcattgcattaagggcaaaagtcatccagagatcatttaaaataaag 376

                                                                       
Query: 177 aaggatcaggggatatggcccagag--acaatgccaggagtgtgt--tcaaacattcacc 232
           ||||||||||  | ||||||||| |  | || ||||  | ||| |  ||| |||||||||
Sbjct: 377 aaggatcaggcaagatggcccaggggta-aa-gcca--attgtttggtcagacattcacc 432

                                                                       
Query: 233 tacaacaccagtgcttaagattttgggaggggcagagacaggaagatgattgtggcttcc 292
           || |||| ||||||| | |||   ||||||||||||||||| |||| || ||||||||||
Sbjct: 433 tataacaacagtgctcaggatg--gggaggggcagagacagaaagaagactgtggcttcc 490

                                                                       
Query: 293 tgaaagccaggctcactacc-agctcagcaagaaacccagtcacaaggggacaccccat- 350
           ||||||| || |||||| || || |||||||||||||| |||| ||||| |||    || 
Sbjct: 491 tgaaagcaagcctcact-cctaggtcagcaagaaaccctgtcataagggaacaa---att 546

                                                                       
Query: 351 --ggag-gaaaagagtagatcacactatacccttccctagcctctgaacttacctgtaca 407
             |||| |||  ||| ||| |||||| |||| |||||| ||||||||| |||||||||||
Sbjct: 547 agggagtgaag-gagcagaacacactgtacctttccctggcctctgaatttacctgtaca 605

                                                                       
Query: 408 gttctctatgcagactcacataaatatgattaaaatatgcaagaggttattttgcatagc 467
           | ||| |||||| || |||||||||||||||||| ||| |||||||||| ||||||||| 
Sbjct: 606 ggtctgtatgcacacacacataaatatgattaaagtatacaagaggttactttgcataga 665

                                                                       
Query: 468 ttat--gttcaaaagcagtgttgttttagactagaaacctgaggacttt-atatcattat 524
           ||||  ||  ||||||| ||||||||||| ||||| ||||||||||||| ||||||||| 
Sbjct: 666 ttatatgt--aaaagcaatgttgttttagcctagagacctgaggacttttatatcattag 723

                                                                       
Query: 525 agttcctggagcaaactcccaagatatagatga---tgggtatatcttcttactgtgcaa 581
            | ||||||||||||||||| | ||||||| ||   ||||||||||||||||||||||||
Sbjct: 724 gggtcctggagcaaactccccatatataga-gagaatgggtatatcttcttactgtgcaa 782

                  
Query: 582 aggaaac 588
           |||||||
Sbjct: 783 aggaaac 789


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: 13
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 588
Length of database: 989
Length adjustment: 10
Effective length of query: 578
Effective length of database: 979
Effective search space:   565862
Effective search space used:   565862
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)