BAC Information

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BAC

Clone NameMSMg01-363J03
ChromosomeY (Build37)
Map Location 1,271,796 - 1,272,322
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 nameMSMg01-363J03.T7 (MSMg01no363_j03.b1)MSMg01-363J03.TJ (MSMg01no363_j03.g1)
ACCAG471976AG471977
length750759
length of high quality
(start - end)		605 (40 - 644)536 (79 - 614)
definitionCHROMAT_FILE: MSMg01no363_j03.b1 PHD_FILE: MSMg01no363_j03.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:59:19 2005CHROMAT_FILE: MSMg01no363_j03.g1 PHD_FILE: MSMg01no363_j03.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:59:19 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCA
CAATGGGGTTTCAGATGTACCCCACCAGAACCGGGATAATTTATATTTCA
AGCATAAATAGCAACTCCGTCAAGTCACACAACCTTAGAAGTAAAGTATC
CCATGATTTCAAGGGGGCTGACCCCCAGTTGGATTATCTTTTGAAGAAGG
CCTTAGCCTTACTTCCTCTAAACATAGTAGTCCCTGACATTAAGGATATG
ACAAAGGGGTCTGCTGACCTTGAATAAAAACACTTTGTTCTTTCTCTGTC
TGCACTGGAGGGGTCTGAGGCATGTCCCTCTGATGAAGAAAGTATAGAAC
TGACATTTGAGAGTAAGGAGTGTGTCTCATACATTCAAGTACAGATCTGG
TGTGCTTAAAACTAAACCGTTGGTACCAAGAATTCACAGGAGTTTCACTC
TTTGTTCATGGCTTACTCAGGTCTACCATTCAACTAATATAGACCAGAGA
TTCTCTCTCAGAAATTATTGTTTAGGGGATACACCTTTCAATACCAATAA
ACTCAGAGAAGTCTGGTTTCAAGTCCCATGGCCAATGAATAANAACTTCA
GCCTAGATCCAAGGGCATCTCTCTTTAAGTTGCTCATCATGAAGGTAATT
GTCGTCAACACCCATACTTCTGTGGNCTATTGTAAGTATAAATAGGGGAC
AGATCCAGGGAATTTTGAGCAGTCTTGTCAGAACAAACCTCATAGTGTTN


CCCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXTAGGTCCATAGCATTTGAGACA
ACTGGTCCTGTCAGCCTCCTTCAGTCTTTCTCAAATTAAACCAATGGTTG
TGCTGATTCTGTCCATTGGTTGTTTGCATACATCTGCATCTGACTGTTTC
ACCTGCTCATTATTTCTTCATAAGTACAGTCATCCTAGCATTCATATTAC
AAGTATCTGAATTCAGAAACATACAGAGGCTGTGTACTGCAAGCAGGTCT
TCTGCAAAAGCAATATATAATATAAGTACTAAAATTGATATCAGTGCTCT
ACAATATTCTATTCTATGTGATGAAATCTCTCTCTCTCTTTCTCTCTCTC
TCTCAATATATATATTCCTCTAACACTTAGTATGAATAAAAATACTCTTA
TATTCTCTCCTACAAAGGAGATGATATTGGCATGTCATCTGCAACATTCA
TTCACTTTCCTACACAGTTTGTGCTTTCTCTTAGCAATCAACTAATATCT
AAATCACACATGCACTCAGATTACAAAGAAAGGTATCTGAGCTCATACAA
ACTGTTATTCTGAGTCAGAGTAGTTGGAAGACAATTCCNAACTGTAGTTA
CGTCCAAGAGCATGGACTTTAACAACTTGTGAATCAGTANAAGAGACATG
TATAGATGCGTTTGTTTCTTTTGGTTTGGTTGGNTTACCTTATTGGGGTA
ACCCCCATC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no363_j03.g1 MSMg01no363_j03.g1 CHROMAT_FILE:
MSMg01no363_j03.g1 PHD_FILE: MSMg01no363_j03.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:59:19 2005
         (536 letters)



>mm_chrY_1271588_1272522
          Length = 935

 Score =  429 bits (222), Expect = e-124
 Identities = 444/544 (81%), Gaps = 57/544 (10%)
 Strand = Plus / Plus

                                                                       
Query: 33  tcagcctccttcagtctttctcaaattaaaccaatggttgt--gctgattctgtccattg 90
           |||||||||||||||||||||| |||| ||||||  ||| |  || |||||||||| |||
Sbjct: 209 tcagcctccttcagtctttctccaattcaaccaa-agtt-tcagcagattctgtccgttg 266

                                                                       
Query: 91  gttgtttgcatacatctgcatctgactgtttcacctgctcattatttcttcataagtaca 150
           |||| ||||| |||||||||||||| |||||| |||||||||||  |||||| |||| ||
Sbjct: 267 gttggttgcagacatctgcatctgattgtttcgcctgctcattaggtcttcagaagtgca 326

                                                                       
Query: 151 gtcatcctagcattcatattacaagtatctgaattcagaaacatacagaggctgtgtact 210
           ||||| |||| ||||| ||||||| ||| ||||||||||||| | |||||||||  ||||
Sbjct: 327 gtcatgctagtattcacattacaaatatgtgaattcagaaacctgcagaggctgcctact 386

                                                                       
Query: 211 gcaagcaggtcttctgcaaaagcaat-----atataatataagtactaaaattgatatca 265
           |||| |||||||||||||||||||||     |||||| |||   ||| || ||  | |||
Sbjct: 387 gcaatcaggtcttctgcaaaagcaatacacgatataa-ata---actgaattttctgtca 442

                                                                       
Query: 266 gtgctctacaatattctattctatgtgatga------------aatctctctctctct-- 311
           |||||||||||     |||||||||||||||            |||||||||||||||  
Sbjct: 443 gtgctctacaa-----tattctatgtgatgaaatctctctctcaatctctctctctctct 497

                                                                       
Query: 312 ---------------t-tctctctctctctcaatatatatattcctctaacacttagtat 355
                          | |||||||||||||||  |||| || || |||||||||||||||
Sbjct: 498 ctctctctctctctctctctctctctctctca--atatctactcttctaacacttagtat 555

                                                                       
Query: 356 gaataaaaatactcttatattctctcctacaaaggag-atgatattggcatgtcatctgc 414
           ||||||  || ||||||| |||||| ||||| ||| | |||||||||| |||||||||||
Sbjct: 556 gaataatgattctcttatcttctctgctacatagg-gcatgatattggaatgtcatctgc 614

                                                                       
Query: 415 aacattcattcactttcctacacagtttgtgctttctcttagcaatcaactaatatctaa 474
           ||||||||||||||||||||| |||||||||||||||||||| |||||||||||||| ||
Sbjct: 615 aacattcattcactttcctactcagtttgtgctttctcttaggaatcaactaatatc-aa 673

                                                                       
Query: 475 a-tcacacatgcactcagattacaaaga-aaggtatctgagctcatacaaactgttattc 532
           | |||||||| ||||||||||||||| | ||||||||| |||||||| || |||||||||
Sbjct: 674 agtcacacattcactcagattacaaa-ataaggtatcttagctcatataa-ctgttattc 731

               
Query: 533 tgag 536
           ||||
Sbjct: 732 tgag 735


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: 25
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: 536
Length of database: 935
Length adjustment: 10
Effective length of query: 526
Effective length of database: 925
Effective search space:   486550
Effective search space used:   486550
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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