BAC Information

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BAC

Clone NameMSMg01-535J17
ChromosomeY (Build37)
Map Location 1,266,153 - 1,266,744
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 nameMSMg01-535J17.T7 (MSMg01no535_j17.b1)MSMg01-535J17.TJ (MSMg01no535_j17.g1)
ACCAG603016AG603017
length761783
length of high quality
(start - end)		669 (46 - 714)592 (78 - 669)
definitionCHROMAT_FILE: MSMg01no535_j17.b1 PHD_FILE: MSMg01no535_j17.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:13:28 2005CHROMAT_FILE: MSMg01no535_j17.g1 PHD_FILE: MSMg01no535_j17.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:13:28 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
ATCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCACTTTCTAATTCTCTTGATACCTCCAGACCAAAACCAGACCCATT
CCCACCTTAATCCTCCTCCCAAGTTCAAGTCTCCTTTTCTCCCCTTTGAT
ACAACCCATTCAAATCAATTGTGTTGCCCATAAACTCTTGGACATGGGGC
TACCATTAGAGCATGGCAAACCTATATCACCTTCAAAGGCCTTACCTTTG
ATGAATACTGTCTCTCCATCCTTCATCAACAGTCCATACATTTTTAGATG
GGGATGATGGATAGTGATACCGTACCACTCAGGGATGGAAGGCAGACTGG
TCTGATTTTATGCAGTAGAGACATACAGTGTCTCAATGACCTCTCTGCCT
TATGAGATTTCCACTTTCTCTTCCTTGAGGGTTCCTAAGACAAAGCACCT
CTACTGCTTGCCTCTTTCTGTTAGTATGCGTATATGTACAAGTGTGTCTA
TATTATAGATGTTTCATTTTACATCCAAGTCAACACATAGTGGGGTTTGC
AATCAACTGCTGGCACTATTTCACACTAGGCAATATTCCTTGATGCAGAC
TTGTTGGGACTACGTAACAGACAGAAACTGGGGATAGCTAGAAATCATCA
CATTTGGTTGTAGTATAGGTGAAATTTACACTTTTGACCTACATTTCTGG
GTCCACCCTATGGTTTTAAGATGCAGGGATGGGGGATCAAGACCCTTAAC
TTGCATTGCAN

NNCCAATGAAGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXCATCAAAATATATTGCATGAAGT
TCTCAAGGAATTAATTAATGTAGTTCTTAATATACAATGTCTGTACTGAA
CATATACAGACCACTTATATTTCAATCTCCTAAATAGCAACTCATTTTAT
AGCACTTACATTACATTAAGTGCAAAAGTAATCCAGAGATTATTTAAAAT
AAAGAAGGATCAGGGGATATGGCCCAGAGACAATGCCAGGAGTGTGTTCA
AACATTCACCTACAACACCAGTGCTTAAGATTTTGGGAGGGGCAGAGACA
GGAAGATGATTGTGGCTTCCTGAAAGCCAGGCTCACTACCAGCTCAGCAA
GAAACCCAGTCACAAGGGGATAAGTTATGGAGGAAAAGAGTAGATCACAC
TATACCCTTCCCTAGCCTCTGAACTTACCTGTACAGTTCTCTATGCAGAC
TCACATAAATATGATTAAAATATGCAAGAGGTTATTTTGCATAGCTTATG
TTCAAAAGCAGTGTTGTTTTAGACTAGAAACCTGAGGACTTTATATCATT
ATAGTTCCTGGAGCAAACTCCCAAGATATAGATGATGGGTATATCTTCTT
ACTGTGCAAAGGAAACCTCAGTTAAGTGTGTGTGTCAGTGACTCCAAACA
GCTTTCCTCCTCTATGTTCCTTTATATAGCAAAGAATGATCTGTAAATAA
TGAAAATATGAAAACAAAGCTTTTTTTGAGATN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no535_j17.g1 MSMg01no535_j17.g1 CHROMAT_FILE:
MSMg01no535_j17.g1 PHD_FILE: MSMg01no535_j17.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:13:28 2005
         (592 letters)



>mm_chrY_1265952_1266944
          Length = 993

 Score =  528 bits (273), Expect = e-154
 Identities = 518/607 (85%), Gaps = 30/607 (4%)
 Strand = Plus / Plus

                                                                       
Query: 1   catcaaaatatattgcatgaagttctcaaggaattaattaatgtagttcttaatatacaa 60
           ||||||||||||||| ||||| |||||||||||||||| || |||||||||||||||| |
Sbjct: 202 catcaaaatatattgtatgaaattctcaaggaattaatgaaagtagttcttaatatacca 261

                                                                       
Query: 61  tgtctgtactgaacatatacagaccacttatatt-tcaatctcctaaatagcaactc--a 117
           |||||||||||||||||||||||||||||||||| ||| ||||||||||| ||||||  |
Sbjct: 262 tgtctgtactgaacatatacagaccacttatattgtca-tctcctaaataacaactccta 320

                                                                       
Query: 118 ttttatagcacttacattacattaagtgcaaaagtaatccagagattatttaaaataaag 177
           |   |||||| || |||| ||||||| |||||||| |||||||||| |||||||||||||
Sbjct: 321 t---atagcagtttcattgcattaagggcaaaagtcatccagagatcatttaaaataaag 377

                                                                       
Query: 178 aaggatcaggggatatggcccagag--acaatgccaggagtgtgt--tcaaacattcacc 233
           ||||||||||  | ||||||||| |  | || ||||  | ||| |  ||| |||||||||
Sbjct: 378 aaggatcaggcaagatggcccaggggta-aa-gcca--attgtttggtcagacattcacc 433

                                                                       
Query: 234 tacaacaccagtgcttaagattttgggaggggcagagacaggaagatgattgtggcttcc 293
           || |||| ||||||| | |||   ||||||||||||||||| |||| || ||||||||||
Sbjct: 434 tataacaacagtgctcaggatg--gggaggggcagagacagaaagaagactgtggcttcc 491

                                                                       
Query: 294 tgaaagccaggctcactacc-agctcagcaagaaacccagtcacaaggggataagttatg 352
           ||||||| || |||||| || || |||||||||||||| |||| ||||| | || ||| |
Sbjct: 492 tgaaagcaagcctcact-cctaggtcagcaagaaaccctgtcataagggaacaaattagg 550

                                                                       
Query: 353 gag-gaaaagagtagatcacactatacccttccctagcctctgaacttacctgtacagtt 411
           ||| |||  ||| ||| |||||| |||| |||||| ||||||||| |||||||||||| |
Sbjct: 551 gagtgaag-gagcagaacacactgtacctttccctggcctctgaatttacctgtacaggt 609

                                                                       
Query: 412 ctctatgcagactcacataaatatgattaaaatatgcaagaggttattttgcatagctta 471
           || |||||| || |||||||||||||||||| ||| |||||||||| ||||||||| |||
Sbjct: 610 ctgtatgcacacacacataaatatgattaaagtatacaagaggttactttgcatagatta 669

                                                                       
Query: 472 t--gttcaaaagcagtgttgttttagactagaaacctgaggacttt-atatcattatagt 528
           |  ||  ||||||| ||||||||||| ||||| ||||||||||||| |||||||||  | 
Sbjct: 670 tatgt--aaaagcaatgttgttttagcctagagacctgaggacttttatatcattagggg 727

                                                                       
Query: 529 tcctggagcaaactcccaagatatagatga---tgggtatatcttcttactgtgcaaagg 585
           ||||||||||||||||| | ||||||| ||   |||||||||||||||||||||||||||
Sbjct: 728 tcctggagcaaactccccatatataga-gagaatgggtatatcttcttactgtgcaaagg 786

                  
Query: 586 aaacctc 592
           |||||||
Sbjct: 787 aaacctc 793


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: 10
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: 592
Length of database: 993
Length adjustment: 10
Effective length of query: 582
Effective length of database: 983
Effective search space:   572106
Effective search space used:   572106
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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