BAC Information

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BAC

Clone NameMSMg01-232F04
Chromosome13 (Build37)
Map Location 24,058,863 - 24,194,613
singlet/doubletdoublet
Overlap geneScgn, Lrrc16
Upstream geneV1rh6, V1rh5, V1ri2, V1ri10, V1rh14, LOC100040639, V1ri5, V1rh13, V1rh12, V1rh16, OTTMUSG00000000541, Zfp322a, Abt1, Btn1a1, Btn2a2, Hist1h4h, Hist1h2af, Hist1h3g, Hist1h2bh, Hist1h3f, Hist1h4f, Hist1h1d, Hist1h3e, Hist1h2ae, Hist1h2bg, Hist1h2bf, Hist1h2ad, Hist1h3d, Hist1h4d, Hist1h2be, Hist1h1e, Hist1h2ac, Hist1h2bc, Hist1h1t, Hist1h4c, Hfe, Hist1h1c, Hist1h3c, Hist1h2bb, Hist1h2ab, Hist1h3b, Hist1h4b, Hist1h4a, Hist1h3a, Hist1h1a, Trim38, Slc17a2, Slc17a3, Slc17a1, Slc17a4, Snrp1c-ps2, Hist1h2ba, Hist1h2aa
Downstream geneLOC100042017, Cmah, 5830431A10Rik, 6330500D04Rik, LOC666145, Gmnn, LOC100040800, BC005537, Them2, Ttrap, D130043K22Rik, Aldh5a1, Gpld1, Mrs2l, LOC675430, Dcdc2a
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-232F04.T7 (MSMg01no232_f04.b1)MSMg01-232F04.TJ (MSMg01no232_f04.g1)
ACCAG398868AG398869
length729722
length of high quality
(start - end)
322 (42 - 363)289 (72 - 360)
definitionCHROMAT_FILE: MSMg01no232_f04.b1 PHD_FILE: MSMg01no232_f04.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:48:47 2005CHROMAT_FILE: MSMg01no232_f04.g1 PHD_FILE: MSMg01no232_f04.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:48:47 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(24,058,863 - 24,059,033)(24,194,325 - 24,194,613)
sequence
TXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATT
CCACCTGCCTTTGCCTCCCAAGAGCTGGGATTAACAGTGTGCATTACCAC
CACCTGTGATCACAGGGTTTTAAATACCTTATATTCACCTATGGCATCTT
AGCAACCAAGTCTTCGGTGAGGGGCTCTTATAGATGATGTCTCATTGAGC
AGAGCAGAGGACAAAAGACACCCAGCATTGTCCAAAGAGCCTTTTGCACT
ATTAGCTTATACAAGACTTTAGGTGAGATAGTGTTAAGAGCTAAAACTTT
CTGTTCTAACCTCAGAAGAGAAGCCCACTGGGTTAGGCAATATGGCGGGC
CATGCTCCTTTGTTTTTTTGCCCCCCCCCCTCCCTTCATATTCTAGAGCT
CCTGAGGATCTGTGGACACCTCAAGAGAGGAGACTGCACACGAAAAGGAG
GTACGAGCACATGTGAAGATAACATTTGTTTTACATCCTTTCTCCTTCTC
CAAATTCAGTTTGGTCTTTTTTAAAATTTGAAATTAATTGAAAAGTACTT
TGTCATCGTTACTTTCCATTATATAATTAACTAACTCAGAGATGAACCTG
CGATAGTATGTGCCTATAATCCCAGCTCTTATAAGGCCGATGCAGTAGGA
TTGGCCGTAGTTCATGGGTCAAGTGATGTACCCAGTAAGGCTCCGTTCTT
ATTTAGCGATATCCGAGTTATGGCAGATG
ACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXTTTATGTAGACCAAGTAGACTGGCCTCAA
GTTTGTAGCAGTCCCTTTTCCCCCAATGTTGGAATCACAAGTTATACAAC
CTCATGGGCTCTATTTTGCTTATTTTTGTACGGTCTGTTGAGTATTGTTT
GAGTTAAGGTCTTGCTTTCTTGACCACCCTGGACTGGAAGCACAAGCTCC
ACACCTTCCTGCAGAAAGTTCCTGAGTGCTGGGATTATAAATGTACCACC
ACCCACTCCCATACCCAGCTCATCTTGCCTTCTTTTCAATAACGCTTGAG
TATGGGATGCTTATTTTCCTGCCCCCCCCCCCAGTTTTATATTCACATAT
GCACACATGGCTCTAATTATGCAAATTCAATTAAAAGGATTTTCATTTAC
AGTAGTACGAAAGCTTTTACTGTTTTGGAAACGCTTCGGCTTTAAGGGAA
TTCTGGGCACCTAATAACCTATAAATGTAATTGATATTCTTGGCAACTAA
AGAAATTATTTAAATCTTTGGATTGCGTTTGGAAGCGCCTCCGAGCTGTA
AGTATTTCTTGGAGCTGACGCTTTATGTGGTGCGTTGTACAGACTTCAGC
TCTGCCTCCGTTCTTGTTCTGCCTGCTGCTGCTGCTGCTGCTGCTGTTGC
TAATTCTCTTCCGCCTCCTTCC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no232_f04.b1 MSMg01no232_f04.b1 CHROMAT_FILE:
MSMg01no232_f04.b1 PHD_FILE: MSMg01no232_f04.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:48:47 2005
         (322 letters)



>mm_chr13_24058659_24059380
          Length = 722

 Score =  308 bits (159), Expect = 4e-88
 Identities = 168/171 (98%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattccacctgcctttgcctcccaagagctgggattaacagtgtgcattaccaccacct 64
           |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattccacctgcctttgcctcccgagagctgggattaacagtgtgcattaccaccacct 264

                                                                       
Query: 65  gtgatcacagggttttaaataccttatattcacctatggcatcttagcaaccaagtcttc 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 gtgatcacagggttttaaataccttatattcacctatggcatcttagcaaccaagtcttc 324

                                                              
Query: 125 ggtgaggggctcttatagatgatgtctcattgagcagagcagaggacaaaa 175
            |||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 325 agtgaggggctcttatagatgatgtctcactgagcagagcagaggacaaaa 375


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: 8
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: 322
Length of database: 722
Length adjustment: 9
Effective length of query: 313
Effective length of database: 713
Effective search space:   223169
Effective search space used:   223169
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)
Query= MSMg01no232_f04.g1 MSMg01no232_f04.g1 CHROMAT_FILE:
MSMg01no232_f04.g1 PHD_FILE: MSMg01no232_f04.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:48:47 2005
         (289 letters)



>mm_chr13_24194294_24194982
          Length = 689

 Score =  536 bits (277), Expect = e-157
 Identities = 286/289 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   tttatgtagaccaagtagactggcctcaagtttgtagcagtcccttttcccccaatgttg 60
           |||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct: 320 tttatgtagaccaagtagactggcctcaagtttgtagcagtcccttttccccaaatgttg 261

                                                                       
Query: 61  gaatcacaagttatacaacctcatgggctctattttgcttatttttgtacggtctgttga 120
           |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 260 gaattacaagttatacaacctcatgggctctattttgcttatttttgtacggtctgttga 201

                                                                       
Query: 121 gtattgtttgagttaaggtcttgctttcttgaccaccctggactggaagcacaagctcca 180
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 200 atattgtttgagttaaggtcttgctttcttgaccaccctggactggaagcacaagctcca 141

                                                                       
Query: 181 caccttcctgcagaaagttcctgagtgctgggattataaatgtaccaccacccactccca 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 140 caccttcctgcagaaagttcctgagtgctgggattataaatgtaccaccacccactccca 81

                                                            
Query: 241 tacccagctcatcttgccttcttttcaataacgcttgagtatgggatgc 289
           |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 80  tacccagctcatcttgccttcttttcaataacgcttgagtatgggatgc 32


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: 12
Number of extensions: 2
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: 289
Length of database: 689
Length adjustment: 9
Effective length of query: 280
Effective length of database: 680
Effective search space:   190400
Effective search space used:   190400
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)