BAC Information

Click to search

BAC

Clone NameMSMg01-263K12
ChromosomeY (Build37)
Map Location 1,271,944 - 1,272,501
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 nameMSMg01-263K12.T7 (MSMg01no263_k12.b1)MSMg01-263K12.TJ (MSMg01no263_k12.g1)
ACCAG405417AG405418
length745824
length of high quality
(start - end)
569 (45 - 613)100 (80 - 179)
definitionCHROMAT_FILE: MSMg01no263_k12.b1 PHD_FILE: MSMg01no263_k12.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:00:38 2005CHROMAT_FILE: MSMg01no263_k12.g1 PHD_FILE: MSMg01no263_k12.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:00:38 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCAGAAACATACACAGGCTGTGTACTGCAAGCAGGTCTTCTGCAAAAG
CAATATATAATATAAGTACTAACCTTGATATCAGTGCTCTACAATATTCT
ATTCTATGTGATGAAATATCTCTCTCTCTCTTTCTCTCTCTCTCTCTCAA
TATATATATTCCTCTAACACTTAGTATGAATAAAGATTCTCTTATATTCT
CTCCTACAAAGGGGATGATATTGGCATGTCATCTGCAACATTCATTCACT
TTCCTACACAGTTTGTGCTTTCTCTTAGCAATCAACTAATATCTAAATCA
CACATTCACTCAGATTACAAAGTAAGGTATCTGAGCTCATGCAAACTGTT
ATTCTGAGTCAGAGCACCCCGAGGACAATTCCAAACTGTAGTTACATCCA
AGAGCATGGACTTTAACAACTTGTGAATCAGTAGAAGAAAAGACAATGTA
TAGACACGGTTGTTTCTTTTGGTTTGGTTTGGTTTAGCTTTGCTTATTTC
AGTTACCCACAATCATTATAAGATACACAGAGAAACACAGATTAATGCCT
GTATCTTGAACTGAATGCTAACAGGGGCCTTAGAACCAACATTTTATTTC
TGTTACAATATACAATATATATTTTTAGAGATTTTTTTTTATTTATTATC
TATTATACCCTCTGTACCAAGTTTAACATATATTTCTTAGTGATC
NTACGATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXAAATGTTTCAACAAAAATGAA
TTGAATTTTGGACGTTGTGTAAACTTTTCAACAATCCTCTGGTTTTAAAA
TTTGGTGTGTATGTGTGTGTGTGTGTGTGCGCACCANTCAAAATGTCTAA
AATCAAAAATTCACGTGACATCAAATGCTGGCGATGATGCGGATAAAGAC
TAACACTCCTCCATTGTTGCTGGGACTGCAAGCTTGTACATCCACTCTGG
AAATCCGCCTGGCGGCTCCTCACATTATTTTATATAGAACTACCGGACGA
TCCAGCATTACCTCTTTTTTTTTTTCCCCCCCCCCCCCCCCCCCAATTGA
TTATGAAAGATATATGATTTTTTTCCCCCCCCCAAAAAAAAAAAATTATC
ACACTTCCGACCTTGTTATTTATCCCTTTACCCCCCCCCCCCACACTTAA
CCGTTTACCACACATTTGTCTTATTACCCACTTTTCCGCCTTTTTCCCCC
TCTGCCCCTCTATTCACCCATTGCCCTTCCTCCCCACTTTCCTTCCTCCC
ACCCCTCTTCTTTCCCCCCCCCCTTTTCCCTCCTCTACCCCTTTCCTCCC
CTCCTTTCCCCCACCCTTTTTTCCTCCTTTTCCCCACCTTTTTCCCCCCT
CCCTTTCCTTTTTCCCCCTTCTCTTCCCCCCCTTTTTTTTTTTCAACCCC
CTTTTATCTCATTTTTCTCACCCTTCACCCATTTCCATTTCACCTTTACC
CCTTTTTCTTTCTTTCCCCATTTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no263_k12.b1 MSMg01no263_k12.b1 CHROMAT_FILE:
MSMg01no263_k12.b1 PHD_FILE: MSMg01no263_k12.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:00:38 2005
         (569 letters)



>mm_chrY_1271760_1272727
          Length = 968

 Score =  429 bits (222), Expect = e-124
 Identities = 470/580 (81%), Gaps = 62/580 (10%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcagaaacatacacaggctgtgtactgcaagcaggtcttctgcaaaagcaatatat 64
           |||||||||||| | || ||||||  |||||||| |||||||||||||||||||||| | 
Sbjct: 185 gaattcagaaacctgcagaggctgcctactgcaatcaggtcttctgcaaaagcaatacac 244

                                                                       
Query: 65  aatataagtactaaccttga------tatcagtgctctacaatattctattctatgtgat 118
            ||||||  | ||||  |||      | ||||||||||||||     |||||||||||||
Sbjct: 245 gatataa--a-taac--tgaattttctgtcagtgctctacaa-----tattctatgtgat 294

                                                                       
Query: 119 gaaat----------atctctctctctct---------------t-tctctctctctctc 152
           |||||          ||||||||||||||               | ||||||||||||||
Sbjct: 295 gaaatctctctctcaatctctctctctctctctctctctctctctctctctctctctctc 354

                                                                       
Query: 153 tcaatatatatattcctctaacacttagtatgaataaagattctcttatattctctccta 212
           |||  |||| || || ||||||||||||||||||||| ||||||||||| |||||| |||
Sbjct: 355 tca--atatctactcttctaacacttagtatgaataatgattctcttatcttctctgcta 412

                                                                       
Query: 213 caaaggggatgatattggcatgtcatctgcaacattcattcactttcctacacagtttgt 272
           || |||| |||||||||| |||||||||||||||||||||||||||||||| ||||||||
Sbjct: 413 catagggcatgatattggaatgtcatctgcaacattcattcactttcctactcagtttgt 472

                                                                       
Query: 273 gctttctcttagcaatcaactaatatctaaa-tcacacattcactcagattacaaagtaa 331
           |||||||||||| |||||||||||||| ||| |||||||||||||||||||||||| |||
Sbjct: 473 gctttctcttaggaatcaactaatatc-aaagtcacacattcactcagattacaaaataa 531

                                                                       
Query: 332 ggtatctgagctcatgca-aactgttattctgagtcagagc--accccga--ggacaatt 386
           ||||||| |||||||  | |||||||||||||||| ||||   |    ||  ||||| ||
Sbjct: 532 ggtatcttagctcat--ataactgttattctgagtgagagtgga----gaaaggacactt 585

                                                                       
Query: 387 ccaaactgtagttacatccaagagcatggactttaacaacttgtgaatcagtagaagaaa 446
           ||||  |||||||||| ||||||| |||| |||||| |||| || || ||||||||||  
Sbjct: 586 ccaatgtgtagttacacccaagagtatggcctttaaaaactggtaaaacagtagaagatg 645

                                                                       
Query: 447 agacaatgtatagacac-ggttgtttcttttggtttggtttggtttagctttg-cttatt 504
           |||| ||||||||| |  |||| ||||||| ||||||||||||||||  |||| || |||
Sbjct: 646 agaccatgtataga-agaggttatttcttt-ggtttggtttggtttaattttgtct-att 702

                                                   
Query: 505 tcagttacccacaatcattataagatacacagagaaacac 544
           ||||||||  |||||||||| |||| |||| | |||||||
Sbjct: 703 tcagttacatacaatcattaaaagaaacactgggaaacac 742


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: 569
Length of database: 968
Length adjustment: 10
Effective length of query: 559
Effective length of database: 958
Effective search space:   535522
Effective search space used:   535522
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)