BAC Information

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BAC

Clone NameMSMg01-422I09
ChromosomeY (Build37)
Map Location 1,716,184 - 1,716,424
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401
Downstream geneLOC100039430, 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 nameMSMg01-422I09.T7 (MSMg01no422_i09.b1)MSMg01-422I09.TJ (MSMg01no422_i09.g1)
ACCAG516892AG516893
length752751
length of high quality
(start - end)
245 (68 - 312)392 (69 - 460)
definitionCHROMAT_FILE: MSMg01no422_i09.b1 PHD_FILE: MSMg01no422_i09.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:42:59 2005CHROMAT_FILE: MSMg01no422_i09.g1 PHD_FILE: MSMg01no422_i09.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:42:59 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
GCGGCCGCTAAACGACTCCTATATTTCGTACTCGGCGGAATTCCACTGTA
CTTGACAATACAAGTACATGGGAACAGAGAGTAGGGGCTGGTCCTGGGAA
AGAGAAAGGGGCCAATCAGTCATTTTATCCTTCCTCTCAGGTAGCAGTTT
ATTTTGGTTCAAGAAACAAATATACTTTCTTTCAATGAATTTTATAAGTG
AACAGGAAATATTTCCATCTCTCAGAACTGCCTGTGGAAATTTTATTGTG
GTTATAGGAGTTTTTTTGGGTCTATTTTCCGAAGAACAATTAAAGCCAGG
TATGTTTAAACTTACTTGCTTTAGCACCAACACGGAATGCTGAACCGCAA
CACTCTATCACTTCCTAGAGAATACATAACATACTAAGTGCCTACCTCAA
CCCTAAAATGAAGTGAAATAAAATCAAACAAATGTACCTTCGATAATTGT
ATCTAGTGCATTGGGAAGTTTATAAGATAATGAATCAAAAAACTCAATTA
TCTTTATGATAAAAATAATTAAGAAATGTTATGAAGGTTAAACAATTACT
ACAAGAAGGGGGTAGGGAGAGACCCTGCGTGATAAACCCACCCACGGTAG
GGGTAAGACTTTGTACTTTGAATCAAGTATTGTGGGCTGGTTGTGCAAAC
AGGTAGTGTTTTTGTTTTTATTTCTTCTATTATTATATTGTATTAAACGG
TCACCTTTTTGTGAAGCAATGAAGGCGCGGATAATCTCCTCCTTTTATAT
GN
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXCTCGCGAAAATACTCTGCTGATCTGCACAGGAAAGCACAGAAATCTAG
GACTATACAGATTTATCCAGTTCCAGAGGGGAAAAAAAAAAGAAACAGGG
AGGAATTGGAAAGTACAAATAAGAATTTGAATGTACAGATTGTAAATCCT
GTCTCTGGGAGTAATAATCAAGATACTTTGAAAGGAACAATCAAGCCATG
TTTAAAAGACTGGACACACCATTTGGCATATGTTATATAAATCAGTAAAA
ATAATTAAAAATGTCTTTTTTTTTTTCACAACAGTCCCCTTAAGTTTTTT
CTTCTGGTTTTCTTCTTTAAATATCTTATTGAATCTGAAGTGATGGCTCA
GCATTTCTGAACACTGGCAGCTCATGCACAGCATACACTTGGACTTGCCA
CATTTCCATTGGCTGTTTACAACTTCTTCTATTTTAGTAACCACAGGGAA
TCCACACTCCCCTTTCCCATGAGATAATGTATCCATACCTATACCGAGAA
ATTCTAACATACCAAATTCTCTTCAATCTGTTCCACCAAACATAACATTA
TGTCCCAATGCTTGGGGTGCTTTTTGTTTTCCAGGCTCACAATTGATCAT
ATGGCAATATACTTTCCTATGTTTGTAATAACTTGCTCTTTTTTTTCCTC
TAACCTAGGAATCCTTTTCCTCCATAATTTCTGGCCCTCTCACCACTATA
N
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no422_i09.b1 MSMg01no422_i09.b1 CHROMAT_FILE:
MSMg01no422_i09.b1 PHD_FILE: MSMg01no422_i09.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:42:59 2005
         (245 letters)



>mm_chrY_1715981_1716630
          Length = 650

 Score =  176 bits (91), Expect = 1e-48
 Identities = 206/249 (82%), Gaps = 21/249 (8%)
 Strand = Plus / Minus

                                                                       
Query: 4   ggaacagagagtaggggctg-gtcctgggaaagaga-aaggggccaatcag-tcatttta 60
           ||||||||||| ||| |||| | ||||| ||| ||| | ||||| |||||| || |||||
Sbjct: 444 ggaacagagagaaggagctgag-cctggaaaacagagagggggctaatcagttc-tttta 387

                                                                       
Query: 61  tccttcctctcaggtagcagttta-----ttttggtt-caagaaacaaatatactttctt 114
           |||| |||||||| ||||||||||     ||||  || ||||||||||||||||||||||
Sbjct: 386 tcctgcctctcagatagcagtttagtttttttt--ttccaagaaacaaatatactttctt 329

                                                                       
Query: 115 tcaatgaattttataagtgaacaggaaatatttccatctctcagaac-tgcctgtgga-a 172
           |||||||||||| | |||||||||||||||||| ||||| ||||| | |  | ||| | |
Sbjct: 328 tcaatgaattttgttagtgaacaggaaatattttcatctatcaga-cataacagtg-aca 271

                                                                       
Query: 173 attttat--tgtggttataggagtttttttgggtctattttccgaagaacaattaaagcc 230
           |||||||  |||  |||||| || ||||||||| |||||||   ||||||||| ||||||
Sbjct: 270 attttatattgt--ttatagaagattttttgggactattttattaagaacaatgaaagcc 213

                    
Query: 231 aggtatgtt 239
           |||||||||
Sbjct: 212 aggtatgtt 204


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: 2
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: 245
Length of database: 650
Length adjustment: 9
Effective length of query: 236
Effective length of database: 641
Effective search space:   151276
Effective search space used:   151276
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)