BAC Information

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BAC

Clone NameMSMg01-401C13
ChromosomeY (Build37)
Map Location 1,271,796 - 1,272,380
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 nameMSMg01-401C13.T7 (MSMg01no401_c13.b1)MSMg01-401C13.TJ (MSMg01no401_c13.g1)
ACCAG500610AG500611
length751749
length of high quality
(start - end)		582 (77 - 658)498 (78 - 575)
definitionCHROMAT_FILE: MSMg01no401_c13.b1 PHD_FILE: MSMg01no401_c13.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:14:43 2005CHROMAT_FILE: MSMg01no401_c13.g1 PHD_FILE: MSMg01no401_c13.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:14:43 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
NAATTATTACTCGTGTCGCTATACGACTCACTATTTTCAGACAATCCGCG
GAATTCTAGGTCTTTACCATATGAGACAACTGGNCCTGTCAGCCTCCTTC
AGTCTTTCTCAAATTAAACCAATGGTTCTGCTGATTCTGTCCATTGGTTG
TTTGCATACATCTGCATCTGACTGTTTCACCTGCTCATTATTTCTTCATA
AGTACAGTCATCCTAGCATTCATATTACAAGTATCTGAATTCAGAAACAT
ACTGAGGCTGTGTACTGCAAGCAGGTCTTCTGCAAAAGCAATATATAATA
TAAGTACTAAAATTGATATCAGTGCTCTACAATATTCTATTCTACGTGAT
GAAATCTCTCTCGCTCTTTCTCTCTCTCTCTCTCTCAATATATATATTCT
TCTAACACTTAGTATGAATAAAAATTCTCTTATATTCTCTCCTACAAAGG
AGATGATATTGGCATGTCATCTGCAACATTCATTCACTTTCCTACACAGT
TTGTGCTTTCTCTTAGCAATCAACTAATATCTAAATCACACATGCACTCA
GATTACAAAGTAAGGTATCTGAGCTCATACAAACTGTTATTCTGAGTCAA
AGTAGTTGGAGGACAATTCCAAACTGTAGTTACGTCCAAGAGCATGGACT
TTAACAACTTGTGAATCAGTAGAAGAGACAATGTGTAGATGCGTTTGTTT
CTTTTGGGTTGGTTTGGGTTAGCTTATTGGGGCTACCCACAATCATTATA
N

NNNCCGATGATAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXACTCCTAGTCACTCCCATTCTCA
GGGTGAAATAGTCAGGTGATGGGCAAGCAATGAATCAGGAGCTGTCATGC
CATATCAGGTGCTGAAATGTCACGCTGCAGGTTATAAAAGCAGCGCCATT
TTCCCGGTTCGGGATCTTCCTGATAAGCAAGCAATAAAGCTCTTGCTGTG
GAAGATTCTAGTTTGTTGTATCTTTCTTGCCGGTCGAGCGGGACGCAATA
GTGAATAGCTTTTACTTCCCTGCTGTTTCTCTCCTAGTACTGACCAGAAA
CTGAGGTGCCATTTCCAGCATACTGTGCTAGGACATAGTCATAGAACACA
TCTTCCTTCGAAAGCAGCTTCTAGGCTTCATTGGAAAAAACTTAAATCTG
TGAATATTGGAAACAGAGTCTGTACATAGCTCAGGTGACAGAGTGACTGC
CTAGCATTTAGCATGCCTAGGACTCAGTGATTAGTGCTGTCTTTACTTTA
TTGCCTTTGGTGGGTCTACTTATTATATTGTAATACACTTGGGATCATAG
AAAGGGATATCATGATGACCTAAGACCAAGACTGTCNATGATGTTGGTTA
GAGTCTTCTCTTGAATCTCAGGCTATAGAGACCTGATACCCCAGTGACTC
CCTTTACTGAAAAACCCACGTTCTATTTCTTTTTTTTTTTAAGCCTCCT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no401_c13.b1 MSMg01no401_c13.b1 CHROMAT_FILE:
MSMg01no401_c13.b1 PHD_FILE: MSMg01no401_c13.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:14:43 2005
         (582 letters)



>mm_chrY_1271604_1272584
          Length = 981

 Score =  470 bits (243), Expect = e-136
 Identities = 493/603 (81%), Gaps = 55/603 (9%)
 Strand = Plus / Plus

                                                                       
Query: 13  tcagcctccttcagtctttctcaaattaaaccaatggttctgctgattctgtccattggt 72
           |||||||||||||||||||||| |||| |||||| | ||| || |||||||||| |||||
Sbjct: 193 tcagcctccttcagtctttctccaattcaaccaaagtttcagcagattctgtccgttggt 252

                                                                       
Query: 73  tgtttgcatacatctgcatctgactgtttcacctgctcattatttcttcataagtacagt 132
           || ||||| |||||||||||||| |||||| |||||||||||  |||||| |||| ||||
Sbjct: 253 tggttgcagacatctgcatctgattgtttcgcctgctcattaggtcttcagaagtgcagt 312

                                                                       
Query: 133 catcctagcattcatattacaagtatctgaattcagaaacatactgaggctgtgtactgc 192
           ||| |||| ||||| ||||||| ||| ||||||||||||| | | |||||||  ||||||
Sbjct: 313 catgctagtattcacattacaaatatgtgaattcagaaacctgcagaggctgcctactgc 372

                                                                       
Query: 193 aagcaggtcttctgcaaaagcaat-----atataatataagtactaaaattgatatcagt 247
           || |||||||||||||||||||||     |||||| |||   ||| || ||  | |||||
Sbjct: 373 aatcaggtcttctgcaaaagcaatacacgatataa-ata---actgaattttctgtcagt 428

                                                                       
Query: 248 gctctacaatattctattctacgtgatga------------aatctctctcgctct---- 291
           |||||||||||||||||     |||||||            |||||||||| ||||    
Sbjct: 429 gctctacaatattctat-----gtgatgaaatctctctctcaatctctctctctctctct 483

                                                                       
Query: 292 ---------t-tctctctctctctctctcaatatatatattcttctaacacttagtatga 341
                    | |||||||||||||||||||  |||| || ||||||||||||||||||||
Sbjct: 484 ctctctctctctctctctctctctctctca--atatctactcttctaacacttagtatga 541

                                                                       
Query: 342 ataaaaattctcttatattctctcctacaaaggag-atgatattggcatgtcatctgcaa 400
           ||||  |||||||||| |||||| ||||| ||| | |||||||||| |||||||||||||
Sbjct: 542 ataatgattctcttatcttctctgctacatagg-gcatgatattggaatgtcatctgcaa 600

                                                                       
Query: 401 cattcattcactttcctacacagtttgtgctttctcttagcaatcaactaatatctaaa- 459
           ||||||||||||||||||| |||||||||||||||||||| |||||||||||||| ||| 
Sbjct: 601 cattcattcactttcctactcagtttgtgctttctcttaggaatcaactaatatc-aaag 659

                                                                       
Query: 460 tcacacatgcactcagattacaaagtaaggtatctgagctcatacaaactgttattctga 519
           |||||||| ||||||||||||||| |||||||||| |||||||| || ||||||||||||
Sbjct: 660 tcacacattcactcagattacaaaataaggtatcttagctcatataa-ctgttattctga 718

                                                                       
Query: 520 gtcaaagtagttggag----gacaattccaaactgtagttacgtccaagagcatggactt 575
           || | |||    ||||    |||| ||||||  |||||||||  ||||||| |||| |||
Sbjct: 719 gtgagagt----ggagaaaggacacttccaatgtgtagttacacccaagagtatggcctt 774

              
Query: 576 taa 578
           |||
Sbjct: 775 taa 777


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: 19
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: 582
Length of database: 981
Length adjustment: 10
Effective length of query: 572
Effective length of database: 971
Effective search space:   555412
Effective search space used:   555412
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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