BAC Information

Click to search

BAC

Clone NameMSMg01-364C21
ChromosomeY (Build37)
Map Location 1,655,831 - 1,656,239
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 nameMSMg01-364C21.T7 (MSMg01no364_c21.b1)MSMg01-364C21.TJ (MSMg01no364_c21.g1)
ACCAG472439AG472440
length781772
length of high quality
(start - end)		453 (53 - 505)414 (84 - 497)
definitionCHROMAT_FILE: MSMg01no364_c21.b1 PHD_FILE: MSMg01no364_c21.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:00:11 2005CHROMAT_FILE: MSMg01no364_c21.g1 PHD_FILE: MSMg01no364_c21.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:00:11 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
NGGTTTGTTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXCGCGGAATTCTTAAAGACTCATGTCCAAAATAGAGCAATAAAAACATA
ATGACTGGCAGGGACTGAGCAATAAAATAACTGAAATGAATTCTTCTCTA
AAGTCAGCTATATTCTTTGAAGCTAGGTTTGAACACTTTATGATCACACC
ATGCAAATGGATTTCACACTCAAGCCATGGTTCTAATTAGGGAGTTTCTT
TCTAGCTAATCTTCTCATGAATAATTCAAAACTGTTGTTCCCCCTCAAAC
CACAGCACAAGTTATTTCCTAAACCATTGTAAATTCCTGTATATGAGAGG
GATTGTATGGGGGAATCTTTCTACTAACAACTAATGTAGCCTGCCATGCA
TAAGTATAACAAATATTCTAAACATACTTTCCTAAAGTTGTCCTGAGATT
TCTAACTCTATGTAGTATATAGCAATGGCTGACACAATCTCTCTTATAAT
ACTAGAGGTAACTCTGGTTGTTACCGGTAACATTCTTACTGAATTTCCAG
CCAGAATCCGCTCTAAGATTACCTATAATATTGTTGTAAAAACAGGAAAA
AAAGTTGGATAATTGCCTTAAAAAATTTCCCCACTCTTAATTTTGAAGTC
CTTCTTTTACAACACTATTGGAACAAACTCCCAAAGTCTCCAATCCCTCA
TCCCCTTAATAACACAGTTTATGAACTTTTTTCTTCAAGGTTTACCCCTA
ATACACTATCCCTTTAATTTATTTATAATCC

TTATATATCGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAAAACAAACAAAATCTC
TTCAATCTGTTTCACCAATCATACATTAGGTCCAATGCTTGGGTGCTTTC
TGTTTCAGGCTCACAATGATCAATGGTATATACTTTCTAGGTTGTATAAC
TGCACTTCATTTCTCTACCAGGAACCTTTCCTCAGATTCTGTCCTCATCA
AGAATCCCATCTAATACCATCAGACACTTCTATGCATCAGAGGGAACAAG
GTCTAGCTGTGTTCCTTGCAGGTTGGGTAGAGCACTGTCAATATCCCTTC
TCCTCCAGCAAACCCTCTCAAGGCTCACAACGGTTGTCTTCCAGAATAAA
ATCTGATTGCCTAAGAGAAGGAGCAAATCATCTCGGCTTGCTCTAATATC
TAAATGACATTACAGATTAAGAAAAAACCTAGAGCTTCCCTAAGATTCTC
AGTCCGGGAGCATTTGGACAATCCATTACTTTCATAGGGCCCAAAATTGT
TTGATTCCTACGGACCAATGAATTGTCCCTTTAAAAGGCCACTTTCCTAG
AGGTAGAATCAGCTCCAATTGTGTTTCTCAAAGGCGGTAACCAAATATAA
CCTGTAAAAAGCAGTGGAATTTTCCCTTTTTCCCCAAAGGGAATTTTGTT
TTTTTGTTTCGGTGGTTCTATTATAGTTCCGTAAGTATTCTCCCTCTGTT
GTGTCACTCCTCTAACTTTAAC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no364_c21.g1 MSMg01no364_c21.g1 CHROMAT_FILE:
MSMg01no364_c21.g1 PHD_FILE: MSMg01no364_c21.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:00:11 2005
         (414 letters)



>mm_chrY_1655631_1656439
          Length = 809

 Score =  313 bits (162), Expect = 1e-89
 Identities = 355/422 (84%), Gaps = 21/422 (4%)
 Strand = Plus / Plus

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

                                                                       
Query: 60  gtgctttctgtttcaggctcacaatgatcaatggtatatacttt-ctaggttgtataact 118
           ||||| || | |||||||||||   ||| |||||| |||| ||| |||  ||||||||||
Sbjct: 260 gtgctctcagcttcaggctcac---gattaatggtttata-tttgctaccttgtataact 315

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

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

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

                                                                       
Query: 295 caacggttgtcttccagaata-aaatctgattgcctaagagaaggagcaaatcatctcgg 353
           ||| | ||||||||||  | | |||||||| ||||||| |||||||||||| ||||||  
Sbjct: 491 caaagtttgtcttcca--agacaaatctgagtgcctaaaagaaggagcaaagcatctcca 548

                                                                       
Query: 354 cttgctctaatatctaaatgacattacagattaagaaaaaacctag-agcttccctaaga 412
           ||||||| |||||||||||| |||| |||||||||||||  ||||| || ||||| ||||
Sbjct: 549 cttgctccaatatctaaatgccattgcagattaagaaaatccctagcag-ttccccaaga 607

             
Query: 413 tt 414
           ||
Sbjct: 608 tt 609


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: 6
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: 414
Length of database: 809
Length adjustment: 9
Effective length of query: 405
Effective length of database: 800
Effective search space:   324000
Effective search space used:   324000
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 |