BAC Information

Click to search

BAC

Clone NameMSMg01-106M23
ChromosomeY (Build37)
Map Location 1,266,169 - 1,266,957
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 nameMSMg01-106M23.T7 (MSMg01no106_m23.b1)MSMg01-106M23.TJ (MSMg01no106_m23.g1)
ACCAG320793AG320794
length7261,404
length of high quality
(start - end)		354 (61 - 414)780 (92 - 871)
definitionCHROMAT_FILE: MSMg01no106_m23.b1 PHD_FILE: MSMg01no106_m23.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:07:46 2005CHROMAT_FILE: MSMg01no106_m23.g1 PHD_FILE: MSMg01no106_m23.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:07:46 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
NAGAAGATGTTGNCTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXCGCGGAATTCCAAGCCCAGCATCCGCTCAAGGACTACCTA
GAATATTGGTGAAGGACAGGGAACAAAGTTGGATATTGCTTAGATATTTG
CCAAGTCATTACTTGGAGGCACTTATAATAAAACAACATTGAAAGAAGTC
ACAAAGTTTCAATCACTTACTAATGTAAGGACAAGTTTGATGCATTTTTT
CCAGGATGGTTCCTGAAGACTTAGTTTCCATGAACTTTTTGACTAGGGAC
TGTGTCTAAATATTTAGAACTGTCACGGGAGTCACTACTGGGGTTTGTGT
TCCAATGGCTGGTGTGCGTTTGTGTGTGTGTGTGTGTGTGTGGGTGTGTG
AGTGCGTGTGTGTTTGCGCTATTCTTTTTTCCTTCTTTTTCCTCCCCCCC
GTTTCCTCCCGTTGGCTGTGCCTTTTTTGCTTGGGCTTGTCTGCCTTGCC
TTGTTTGGTCTTCCCTTTGTTCTGTTGTTTGTTTCGTTTCGCGTGCCGTT
TTTGTGTCGTCTCGGGGCTCTTTTCTTTCGTCTCTGTCTCGTCTGTTTTT
TTCGGTTGTCTTCTTCCGTGTTCGCCGCTTCTTGTGGCTTCACTTCTTAT
TCTAGGGGGGCCGAGGTGTGTTGGTGGGTAGGTTGGAGTGGTGGAGAAGC
TTCCGTGCGGTCGACTGGCCGCCGTT

NCCAACCTTTTTCTAAGCATGGAGCXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXCATCCCATTATTGTATGAAGTTC
TCAAGGAATTAATTAATATAGTTCTCAATATACAATGTCTTTACTGAACA
TATACAGACCACTTATATTTCAATCTCCTAAATAGCAACTCATTTTATAG
CACTTACATTACATTAAGTGCAAAAGTAATCCAGAGATTATTTAAAATAA
AGAAGGATCAGGGGATATGGCCCAGAGACAATGCCATGTGTGTGTTAAAA
CATTCACCTACAACACCAGTGCTTATGATTTTGGGAGGGGCAGAGATAGG
AAGATGACTGTGGCTTCCTGAAAGCCAGCTCAGCAAGAAACCCAGTCACA
AGGGGATAAGTTATGGAGGAAAAGAGTAGATCACACTATACCCTTCCCTA
GCCTCTGAACTTACCTGTACAGTTCTCTATGCAGACTCACATAAATATGA
TTAAAATATGCAAGAGGTTATTTTGCATAGCTTATATTCAAAAGCAATGT
TGTTTTAGACTAGAAACCTGAGGACTTTATATCATTATAGTTCCTGGAGC
AAACTCCCAAGATATAGATGATGGGTATATCTTCTTACTGTGCAAAGGAA
ACCTCAGTTAAGTGTGTGTGTCAGTGACTCCAAACAGCTTTCCTCCTCTA
TGTTCCTTTATATAGCATAGAATGATCTGTAAATAATGAAAATATGAAAA
CAAAGCTTTTTTGAGATTTTAGGCTTGTGTTAAAATCATATTTATAACAT
CGTATTAAATGGAAGTGAAATCTTCAGCTCTCAGGAACAATACAGTCCAT
GCTGTAGGCTTCTGTTTTGTCCCATTGTGAACAAAATTAATTGCACATCA
ACAGGTCCCACACTTTTAACTTAATCAGGGAAAAGGGCTATGTTTCCGTA
CAAATAAATATAGTCATGTGGTTATTCCAGTAAAAACCGCCAGGTTAAGA
AGCCTTTTGTTTTTTTGATAATGGAGGATGGATAATCCTTTTTTTCTAAA
AACCCTTCCCTCCAAAAAAAAAAATATGGTTTTTAAAATATTACACAGTG
GGTGGGGCCTTTTTAATAACATCCTTTTTCTTTCCAACTTTAAAGGTGAA
AAAAAGGAGCCCCCCAAACTCAAAATTTAAAGAGTGTGTTTTTCTTGGGG
GGAGGATTGAAAAAAATAAATTTATTTTTTTTAATAAATATGCATATCTC
TTTAATTTAAAAAANAAAAAGAAAATCCTCCCATTATATTTCCCTCTTCC
TTGCCGCTCTTTTTTTGTCGTGTCTTTTGGATCTCCCCNCAATCTTCTTT
TTGACATAATTTTGTTTATGTGATAACCATCCAAATACACTCTGTCTGTA
TTTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no106_m23.g1 MSMg01no106_m23.g1 CHROMAT_FILE:
MSMg01no106_m23.g1 PHD_FILE: MSMg01no106_m23.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:07:46 2005
         (780 letters)



>mm_chrY_1265978_1267160
          Length = 1183

 Score =  714 bits (369), Expect = 0.0
 Identities = 687/805 (85%), Gaps = 44/805 (5%)
 Strand = Plus / Plus

                                                                       
Query: 1   atgaagttctcaaggaattaattaata-tagttctcaatatacaatgtctttactgaaca 59
           ||||| |||||||||||||||| || | ||||||| ||||||| |||||| |||||||||
Sbjct: 192 atgaaattctcaaggaattaatgaa-agtagttcttaatataccatgtctgtactgaaca 250

                                                                       
Query: 60  tatacagaccacttatatt-tcaatctcctaaatagcaactc--attttatagcacttac 116
           ||||||||||||||||||| || |||||||||||| ||||||  |   ||||||| || |
Sbjct: 251 tatacagaccacttatattgtc-atctcctaaataacaactccta---tatagcagtttc 306

                                                                       
Query: 117 attacattaagtgcaaaagtaatccagagattatttaaaataaagaaggatcaggggata 176
           ||| ||||||| |||||||| |||||||||| |||||||||||||||||||||||  | |
Sbjct: 307 attgcattaagggcaaaagtcatccagagatcatttaaaataaagaaggatcaggcaaga 366

                                                                       
Query: 177 tggcccagag--acaatgcc-atgtgtgtgttaaaacattcacctacaacaccagtgctt 233
           |||||||| |  | || ||| || ||| || | | ||||||||||| |||| ||||||| 
Sbjct: 367 tggcccaggggta-aa-gccaat-tgtttggtcagacattcacctataacaacagtgctc 423

                                                                       
Query: 234 atgattttgggaggggcagagataggaagatgactgtggcttcctgaaagccagc----- 288
           | ||  | |||||||||||||| || |||| |||||||||||||||||||| |||     
Sbjct: 424 agga--tggggaggggcagagacagaaagaagactgtggcttcctgaaagcaagcctcac 481

                                                                       
Query: 289 -------tcagcaagaaacccagtcacaaggggataagttatggag-gaaaagagtagat 340
                  |||||||||||||| |||| ||||| | || ||| |||| | || ||| ||| 
Sbjct: 482 tcctaggtcagcaagaaaccctgtcataagggaacaaattagggagtg-aaggagcagaa 540

                                                                       
Query: 341 cacactatacccttccctagcctctgaacttacctgtacagttctctatgcagactcaca 400
           |||||| |||| |||||| ||||||||| |||||||||||| ||| |||||| || ||||
Sbjct: 541 cacactgtacctttccctggcctctgaatttacctgtacaggtctgtatgcacacacaca 600

                                                                       
Query: 401 taaatatgattaaaatatgcaagaggttattttgcatagcttatat-tcaaaagcaatgt 459
           |||||||||||||| ||| |||||||||| ||||||||| |||||| | |||||||||||
Sbjct: 601 taaatatgattaaagtatacaagaggttactttgcatagattatatgt-aaaagcaatgt 659

                                                                       
Query: 460 tgttttagactagaaacctgaggac-tttatatcattatagttcctggagcaaactccca 518
           |||||||| ||||| |||||||||| ||||||||||||  | ||||||||||||||||| 
Sbjct: 660 tgttttagcctagagacctgaggacttttatatcattaggggtcctggagcaaactcccc 719

                                                                       
Query: 519 agatatagatg---atgggtatatcttcttactgtgcaaaggaaacctcagttaagtgtg 575
           | ||||||| |   ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 720 atatataga-gagaatgggtatatcttcttactgtgcaaaggaaacctcagttaagtgtg 778

                                                                       
Query: 576 tgtgtcagtgactccaaacagctttcctcctctatgttcct-ttatatagcatagaatga 634
           ||||||||||||||||||||||||||||||||||  ||||| || ||||||| |||||||
Sbjct: 779 tgtgtcagtgactccaaacagctttcctcctctaaattcctatt-tatagcacagaatga 837

                                                                       
Query: 635 tctgtaaataatgaaaatatgaaaacaaagctttttt-gagattttaggcttgtgttaaa 693
           |||||||||||||||| |||||||||||||||||||  | | ||| ||||||||||||||
Sbjct: 838 tctgtaaataatgaaactatgaaaacaaagctttttcagggcttt-aggcttgtgttaaa 896

                                                                       
Query: 694 atcatatttataacatcgtattaaatggaagtgaaatcttcagctctcaggaacaataca 753
           |||||||||||||| |  ||||||||||||| |||||||||||| | ||||||||||  |
Sbjct: 897 atcatatttataacgttttattaaatggaagggaaatcttcagcacccaggaacaatgga 956

                                    
Query: 754 gtccat-gctgtaggcttctgtttt 777
           ||| || | ||| ||||||||||||
Sbjct: 957 gtcaattg-tgttggcttctgtttt 980


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: 15
Number of extensions: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 780
Length of database: 1183
Length adjustment: 10
Effective length of query: 770
Effective length of database: 1173
Effective search space:   903210
Effective search space used:   903210
X1: 9 (17.8 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 9 (18.3 bits)
S2: 9 (18.1 bits)


| Home | SequenceCutter | Blast | Download |