BAC Information

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BAC

Clone NameMSMg01-403F05
ChromosomeY (Build37)
Map Location 1,654,885 - 1,655,147
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143
Downstream geneLOC100039401, LOC100039430, 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 nameMSMg01-403F05.T7 (MSMg01no403_f05.b1)MSMg01-403F05.TJ (MSMg01no403_f05.g1)
ACCAG502262AG502263
length766752
length of high quality
(start - end)
463 (71 - 533)530 (74 - 603)
definitionCHROMAT_FILE: MSMg01no403_f05.b1 PHD_FILE: MSMg01no403_f05.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:17:34 2005CHROMAT_FILE: MSMg01no403_f05.g1 PHD_FILE: MSMg01no403_f05.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:17:34 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAAT
TCANATCNTTCTGAAAATACACCAAATCCTGAGATTAAACCCCTTTCTAA
GCAGACATCAACATTTTTTTTTAATTTTCTGTCTCACAATACTTCTTTAG
AAGATGTCCTCATCACAGTTCCCAAGTAATGCCTTCAGACACTTCTAACT
TTCTGTAGCAACCTTACCATATAGAGCCTATGTAAGGCATCCTGTTGGGT
AGCATTCTGTCTTAAGCTGTCCACATCCAAAGTGTTTGTATTCTTCACAG
TGGCCTGTGAGGTTAGTGTGATAAATCTGGGATGAGCTGTCAGGTGAAGA
ATTATTCACCACTGCAGCCACAAAGCTTGCAGTTTCCACTGCTCCTGATC
ATGATGCTGCAGAAGGTTTCTTTGATTTTCATAGACACTGGCTTCTTATT
CCAAAATCTTGGTATTGGTACTGTATTCTGCCTGTCTGTGTAAACAATTA
GACATGAACCATGTCTTAGTATACTGGTTGAATCTTGAGAAGTTTGTTGT
TCTTTTCTGCTGGATAGCCTGTTACTGGGGAAATCAGGCCATCAAGATTA
TTCTTAGCCTGGAANGTACAGAGTCAGGGTCAGAGGAAGTGTGAAGTCTG
GGTAAGGACTAATTCTTAATCCAGATATTCCCTATGAATAAGAACATAAA
TTGTCCACATTCTCATTAAAAAAAAAAAAACTGAGGGTTAATAGGGGTAA
TCTCCAAAGAAAGCAA
ATACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXAGTTTTGCACTGTGCCATATAAAGAAG
GAAGCACAGAAGACTCCTAGAAAAGAAACTGACAATATAAAATTAGCACT
GGATCAATGAAAATATGTTTCATGTACAGAATTTTGTATACATATCACTT
AGCTATGAGTACATGGAACTGTGAAATTGTTTACATCTATTTTTTTTTCC
TTTTAAAATTCCTTCAAAGCTGTTACAAAAAAGCCTCAGTAGTCAAGAGG
GCCTACTGTGAAAAGAGGAGGTTCACAAAGTACTTTTTTTTTTGTTTTTT
AAGGTAAGTAATGTTACTTCATGCTTATCAAAGGATAATTCATCAAAGAT
GAACTCACAATTCTGAATATCTATGCTCCAAATACAAGGGCAACCAAATT
CATAAAGAAATTTTACTAGAACTCAAAGTACATATTGTACCCCATATAAT
AATAGTGAGAAACTTCAACACCCCACTCTGAGCAACGCAGAGGTCCTGGA
AAAAAGAAATGAAAAAGAGACACTGTGAAACTAATGAGAAGTTATGAAAC
AATCGGATTCATCAGATACATATATATGTATCTGTCACACACACACAGAC
ACACACATCCAAACATGCACACATATATTGAAGCAAATTCTCACACAGTT
CTCACTAGATGAAGAAAATTATTTGAAAAAAAACACCAACCCTCCTGATA
AA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no403_f05.b1 MSMg01no403_f05.b1 CHROMAT_FILE:
MSMg01no403_f05.b1 PHD_FILE: MSMg01no403_f05.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:17:34 2005
         (463 letters)



>mm_chrY_1654391_1655253
          Length = 863

 Score =  205 bits (106), Expect = 5e-57
 Identities = 230/276 (83%), Gaps = 23/276 (8%)
 Strand = Plus / Minus

                                                                       
Query: 187 ctgtcttaagctg-tccacatccaaagtgtttgtattcttcacagtggcctgtgaggtta 245
           ||||||||||||| | || ||||||||||||||||||| | | |||  |||| | |||||
Sbjct: 757 ctgtcttaagctgct-catatccaaagtgtttgtattcgtaaaagtcacctgagtggtta 699

                                                                       
Query: 246 gtgtgataaatctgggatgagctgtcaggtgaagaattat----tcaccactgcagccac 301
           ||||||||||||||||| ||| ||||||| |  |   | |    ||| || | |||||||
Sbjct: 698 gtgtgataaatctgggaagagatgtcagg-g--g---t-tgcgctcatcattacagccac 646

                                                                       
Query: 302 aaagcttgcag-tttccact-gctcctgatcatgatgctgcagaaggtttctttgatttt 359
           ||||| ||||| |||  ||| |||||||||||||||||||||||||||| ||||||| ||
Sbjct: 645 aaagcatgcagattt--actagctcctgatcatgatgctgcagaaggttactttgatctt 588

                                                                       
Query: 360 catagacactggcttcttattcc-aaaatcttggtattggtactgtattc-tgcctgtct 417
           |||||||| |||||||| ||||| |||| ||| ||| ||| ||||||||| | |||||||
Sbjct: 587 catagacattggcttctaattcccaaaa-cttagtagtggcactgtattcct-cctgtct 530

                                               
Query: 418 gtgtaaacaattagacatga-accatgtcttagtat 452
           | ||||||||||| |||||| || ||||||||||||
Sbjct: 529 gggtaaacaattacacatgacac-atgtcttagtat 495


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: 5
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: 463
Length of database: 863
Length adjustment: 10
Effective length of query: 453
Effective length of database: 853
Effective search space:   386409
Effective search space used:   386409
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)