BAC Information

Click to search

BAC

Clone NameMSMg01-441F23
ChromosomeY (Build37)
Map Location 1,655,831 - 1,656,279
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 nameMSMg01-441F23.T7 (MSMg01no441_f23.b1)MSMg01-441F23.TJ (MSMg01no441_f23.g1)
ACCAG531269AG531270
length761808
length of high quality
(start - end)		414 (73 - 486)454 (73 - 526)
definitionCHROMAT_FILE: MSMg01no441_f23.b1 PHD_FILE: MSMg01no441_f23.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:08:07 2005CHROMAT_FILE: MSMg01no441_f23.g1 PHD_FILE: MSMg01no441_f23.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:08:08 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
ATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAAT
TCAAGTTTTATGTCTGATTCCAAATTCCTTACAGAATGAAATAAAATTTT
TACTAGAATAGGATGGCCCATTATCTGTTTTGATATGTTTAGGCAATCCT
ATTGCATTAAATGCTTGTGGGCAATGATCAATTACGTTTTTAGAAAACTT
TCCTTTATGCAGAGAAGCAGAAAAATGCAAAAAGAAATCCTGAACAAGTA
TCGATACAAACATGTTCATATTTTAGTTTTCCAAATTCTGCATAATGGGT
TATATCCATTTGCCAAATATGATTAGACATAAGGCCTCTAGAATTGACTT
ATAAATGTGGCACTGGAGATAATGAAATACATTTAGGACATTGCTTTACA
ATCATTTCGCTTGTTCTTTAGTGATCTTATGTCTTGTGTGTGTGTGTGTG
TGTGTGTGTGGGTGTGTGTGCGTGTGTGTGTTTGTGNNNNTGNNNNTNNT
NNNNNTTNNNTNNNNTTNTTTTTTTTNNNTNTTTNTTTTTTTTTTTTTTT
TTTTTTTTTTNTTTTTTTTTTTTNNTTTTTNTTTTTTTTNTNTTTTTTTT
TTTTTTTTTTTTTTTNTTTTTTTTTTTTNTTTNNTTTNNTTTTTTNNTTT
TTTTTTTTTTTTTTTTNTTTTTTTTTTTTTTTTTTTTTTTTTTNTTTTTT
NNTTTTTTTNTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTNNTTTTTTTT
TTTTTTTNTTT

ATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXAAAACAAACAAAATCTCTTCAATCTGTC
TCACCAATCATACATTATGTCCAATGCTTGGGTGCTTTCTGTTTCAGGCT
CACAATAATCAATGGTATATACTTTCTAGGTTGTATAACTGCACTTCATT
TCTCTACCAGGAACCTTTCCTCAGATTCTGTCCTCATCAAGAATCCCATC
TAATACCATCAGACACTTCTATGCATCAGAGGGAACAAGGTCTAGCTGTG
TGCCTTGCAGGTTGGGTAGAGCACTGTCAATATCCCTTCTCCTCCAGCAA
ACCCTCTCAAGGCTCACAACGGTTGTCTTCCAGGATAAAATCTGATTGCC
TAAGAGAAGGAGCAAATCATCTCTGCTTGCTCTAATGTCTAAATGACATT
GCAGATTAAGAAAAAACCTAGAGCTTCCCCAAGATTCTCAGTCCGGGAGC
ATTTGGACAATCCATTACTTTCATAGGGTCCAAAATTGTTTGAATTCTAC
AGACCAATGAATTGTCCCATTANAAGCCACCTTTCCAGCANGTAGCAGCA
GCTCCAACTGTTGTCTCCCAAGGGAGTTAACAAAAACCAACTGAAAAAGC
AGGTGGAACTGCTCCTGGTCCCACAAAGTGATTTTGTTTTCTGGTGGGAA
GGGCAATTTAAATGCTGTGAGAATTTTGGCTTGTTGAAGGGTTCACCCCC
CAAAAAAACCCTTTTTTAAAAAAACAAAAAGAAGTTCTTTTCAAAAACCT
CCTCTTGT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no441_f23.g1 MSMg01no441_f23.g1 CHROMAT_FILE:
MSMg01no441_f23.g1 PHD_FILE: MSMg01no441_f23.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:08:08 2005
         (454 letters)



>mm_chrY_1655631_1656479
          Length = 849

 Score =  381 bits (197), Expect = e-110
 Identities = 394/461 (85%), Gaps = 19/461 (4%)
 Strand = Plus / Plus

                                                                       
Query: 1   aaaacaaacaaaatctcttcaatctgtctcaccaatcatacattatgtccaatg-cttgg 59
           |||||||||||||| |||||||  ||||||| |||| || ||||| |||||||| | |  
Sbjct: 201 aaaacaaacaaaatgtcttcaaagtgtctcagcaattatgcattaggtccaatgtc-tca 259

                                                                       
Query: 60  gtgctttctgtttcaggctcacaataatcaatggtatatacttt-ctaggttgtataact 118
           ||||| || | ||||||||||| ||  | |||||| |||| ||| |||  ||||||||||
Sbjct: 260 gtgctctcagcttcaggctcacgat--t-aatggtttata-tttgctaccttgtataact 315

                                                                       
Query: 119 gcacttca-tttctctaccaggaacctttcctcagattctgtcctcatcaagaatcccat 177
           ||||| || ||| |||||| |||| ||| |||||||| ||||||||| |||| ||  |||
Sbjct: 316 gcactacagttt-tctacctggaaacttgcctcagatcctgtcctcagcaaggat--cat 372

                                                                       
Query: 178 -ctaataccatcagacacttctatgc-atcagagggaacaaggtctagctgtgtgccttg 235
            | || ||||||||| | |||||||| | |||||||||||| ||||||||||||||| ||
Sbjct: 373 gc-aacaccatcagaaaattctatgcta-cagagggaacaaagtctagctgtgtgccatg 430

                                                                       
Query: 236 caggttgggtagagcactgtcaatatcccttctcctccagcaaaccctctcaag-gctca 294
           ||| |||| ||||||||||||||||||||||||||||||||||||||||||||  |||||
Sbjct: 431 cagtttggttagagcactgtcaatatcccttctcctccagcaaaccctctcaaatgctca 490

                                                                       
Query: 295 caacggttgtcttccaggataaaatctgattgcctaagagaaggagcaaatcatctctgc 354
           ||| | |||||||||| || ||| ||||| ||||||| |||||||||||| ||||||  |
Sbjct: 491 caaagtttgtcttccaagacaaa-tctgagtgcctaaaagaaggagcaaagcatctccac 549

                                                                       
Query: 355 ttgctctaatgtctaaatgacattgcagattaagaaaaaacctag-agcttccccaagat 413
           |||||| ||| |||||||| ||||||||||||||||||  ||||| || |||||||||||
Sbjct: 550 ttgctccaatatctaaatgccattgcagattaagaaaatccctagcag-ttccccaagat 608

                                                    
Query: 414 tctcagtccgggagcatttggacaatccattactttcatag 454
           ||||||||| ||||||||||| ||||| |||||||||||||
Sbjct: 609 tctcagtccaggagcatttgggcaatctattactttcatag 649


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: 7
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: 454
Length of database: 849
Length adjustment: 10
Effective length of query: 444
Effective length of database: 839
Effective search space:   372516
Effective search space used:   372516
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)


| Home | SequenceCutter | Blast | Download |