BAC Information

Click to search

BAC

Clone NameMSMg01-534F21
ChromosomeY (Build37)
Map Location 1,271,959 - 1,272,529
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 nameMSMg01-534F21.T7 (MSMg01no534_f21.b1)MSMg01-534F21.TJ (MSMg01no534_f21.g1)
ACCAG602069AG602070
length757760
length of high quality
(start - end)		597 (44 - 640)565 (72 - 636)
definitionCHROMAT_FILE: MSMg01no534_f21.b1 PHD_FILE: MSMg01no534_f21.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:11:52 2005CHROMAT_FILE: MSMg01no534_f21.g1 PHD_FILE: MSMg01no534_f21.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:11:52 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
TAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAA
TTCTTCTCTAAAGTCAGCTATATTCTTTGAAGCTAGGTTTGAACACTTTA
TGATCACACCATGCAAATGGATTTCACACTCAAGCCATGGTTCTAATTAG
GGAGTTTCTTTCTAGCTAATCTTCTCATGAATAATTCAAAACTGTTGTTC
CCCCTCAAACCACAGCACAAGTTATTTCCTAAACTATTGTAAATTCCTGT
ATATGAGAGGGATTGTATGGGGGAATCTTTCTACTAACAACTAATGTAGC
CTGCCATGCATAAGTATAACAAATATTCTAAACATACTTTCCTAAAGTTG
TCCTGAGATTTCTAACTCTATGTAGTATATAGCAATGGCTGTAACAATCT
CTCTTATAATACTAGAGGTAACTCTGGTTGTTACAGGTAACATTCTTACT
GAATTCCAAGCCCAGGATCCGCTCAAGGACTACCTAGAATATTGGTGAAG
GACAGGGAACAAAGTTGGATATTGCTTAGATATTTGCCAAGTCATTACTT
GGAGGCACTTATAATAAAACAACATTGAAAGAAGTCACAAAGATTCAATC
ACTTACTAATGTAAGGACAAGTTTGATGCATTTTTTCCAGGATGGTTCCT
GAAGACTTAGTTTCCATGAACTTTTTGACTAGGGACTGTGTCTAAATATT
TAGAACTGTCANCGGAGTCACTACTGGGGTTTTGTGTCCAATGGCTGGTG
TGCGTTT

TGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXAGAAAATACAGAGGCTGTGTACTGCAAGC
AGGTCTTCTGCAAAAGCAATATATAATATAAGTACTAAAATTGATATCAG
TGCTCTACAATATTCTATTCTATGTGATGAAATATCTCTCTCTCTCTTTC
TCTCTCTCTCTCTCAATATATATATTCCTCTAACACTTAGTATGAATAAA
GATTCTCTTATATTCTCTCCTACAAAGGGGATGATATTGGCATGTCATCT
GCAACATTCATTCACTTTCCTACACAGTTTGTGCTTTCTCTTAGCAATCA
ACTAATATCTAAATCACACATGCACTCAGATTACAAAGTAAGGTATCTGA
GCTCATGCAAACTGTTATTCTGAGTCAGAGTAGGGGGAGGACAATTCCAA
ACTGTAGTTACATCCAAGAGCATGGACTTTAACAACTTGTGAATCAGTAG
AAGAAAAGACAATGTATAGACACGGTTGTTTCTTTTGGTTTGGTTTGGTT
TAGCTTTGCTTATTTCAGTTACCCACAATCATTATAAGAAACACAGAGAA
ACACAGATTAATGCCTGTATCTTGAACTGAATGCAAACAGGGGCCTTAGA
ACCAACATTTTATTTCTGTTACAATATACAATATATATTTTTAGAGATTT
TTTTTATTTATTAGCTATTATACCCANNCTGCACAGTTTAAGAAATATTC
CTAGTGACCN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no534_f21.g1 MSMg01no534_f21.g1 CHROMAT_FILE:
MSMg01no534_f21.g1 PHD_FILE: MSMg01no534_f21.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:11:52 2005
         (565 letters)



>mm_chrY_1271771_1272733
          Length = 963

 Score =  445 bits (230), Expect = e-129
 Identities = 482/592 (81%), Gaps = 60/592 (10%)
 Strand = Plus / Plus

                                                                       
Query: 9   cagaggctgtgtactgcaagcaggtcttctgcaaaagcaat-----atataatataagta 63
           |||||||||  |||||||| |||||||||||||||||||||     |||||| |||   |
Sbjct: 189 cagaggctgcctactgcaatcaggtcttctgcaaaagcaatacacgatataa-ata---a 244

                                                                       
Query: 64  ctaaaattgatatcagtgctctacaatattctattctatgtgatgaaat----------a 113
           || || ||  | ||||||||||||||     ||||||||||||||||||          |
Sbjct: 245 ctgaattttctgtcagtgctctacaa-----tattctatgtgatgaaatctctctctcaa 299

                                                                       
Query: 114 tctctctctctct---------------t-tctctctctctctctcaatatatatattcc 157
           |||||||||||||               | |||||||||||||||||  |||| || || 
Sbjct: 300 tctctctctctctctctctctctctctctctctctctctctctctca--atatctactct 357

                                                                       
Query: 158 tctaacacttagtatgaataaagattctcttatattctctcctacaaaggggatgatatt 217
           ||||||||||||||||||||| ||||||||||| |||||| ||||| |||| ||||||||
Sbjct: 358 tctaacacttagtatgaataatgattctcttatcttctctgctacatagggcatgatatt 417

                                                                       
Query: 218 ggcatgtcatctgcaacattcattcactttcctacacagtttgtgctttctcttagcaat 277
           || |||||||||||||||||||||||||||||||| |||||||||||||||||||| |||
Sbjct: 418 ggaatgtcatctgcaacattcattcactttcctactcagtttgtgctttctcttaggaat 477

                                                                       
Query: 278 caactaatatctaaa-tcacacatgcactcagattacaaagtaaggtatctgagctcatg 336
           ||||||||||| ||| |||||||| ||||||||||||||| |||||||||| ||||||| 
Sbjct: 478 caactaatatc-aaagtcacacattcactcagattacaaaataaggtatcttagctcat- 535

                                                                       
Query: 337 ca-aactgttattctgagtcagagtaggggga--ggacaattccaaactgtagttacatc 393
            | |||||||||||||||| |||||  || ||  ||||| ||||||  |||||||||| |
Sbjct: 536 -ataactgttattctgagtgagagt--ggagaaaggacacttccaatgtgtagttacacc 592

                                                                       
Query: 394 caagagcatggactttaacaacttgtgaatcagtagaagaaaagacaatgtatagacac- 452
           |||||| |||| |||||| |||| || || ||||||||||  |||| ||||||||| |  
Sbjct: 593 caagagtatggcctttaaaaactggtaaaacagtagaagatgagaccatgtataga-aga 651

                                                                       
Query: 453 ggttgtttcttttggtttggtttggtttagctttg-cttatttcagttacccacaatcat 511
           |||| ||||||| ||||||||||||||||  |||| || |||||||||||  ||||||||
Sbjct: 652 ggttatttcttt-ggtttggtttggtttaattttgtct-atttcagttacatacaatcat 709

                                                               
Query: 512 tataagaaacacagagaaacacagatta--atgcctgtatcttgaactgaat 561
           || ||||||||| | |||||||   ||   |||| | |||||||||||||||
Sbjct: 710 taaaagaaacactgggaaacacc--ttctcatgcatatatcttgaactgaat 759


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: 28
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: 565
Length of database: 963
Length adjustment: 10
Effective length of query: 555
Effective length of database: 953
Effective search space:   528915
Effective search space used:   528915
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 |