BAC Information

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BAC

Clone NameMSMg01-123L03
Chromosome13 (Build37)
Map Location 24,336,789 - 24,479,471
singlet/doubletdoublet
Overlap geneLrrc16, LOC100042017
Upstream geneOTTMUSG00000000541, 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, Scgn
Downstream geneCmah, 5830431A10Rik, 6330500D04Rik, LOC666145, Gmnn, LOC100040800, BC005537, Them2, Ttrap, D130043K22Rik, Aldh5a1, Gpld1, Mrs2l, LOC675430, Dcdc2a, Nrsn1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-123L03.T7 (MSMg01no123_l03.b1)MSMg01-123L03.TJ (MSMg01no123_l03.g1)
ACCAG333235AG333236
length1,1831,234
length of high quality
(start - end)
326 (132 - 457)330 (130 - 459)
definitionCHROMAT_FILE: MSMg01no123_l03.b1 PHD_FILE: MSMg01no123_l03.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:33:46 2005CHROMAT_FILE: MSMg01no123_l03.g1 PHD_FILE: MSMg01no123_l03.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:33:46 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(24,479,146 - 24,479,471)(24,336,789 - 24,337,118)
sequence
TGTCTCTNNNAGAATCTGGCGCTATAGACTCCTATAGGGAGAGGATCCGC
GGAATTCCCAGAAATGGGAAGACACCCTTTGAGACCCTTTTTTACTTAGC
TTATTTATCAAAAGGACCCTTATGACCCCGGGATTCAGAAAAGGGAGCTC
AGGCAGCCAGGATGTGGGGATGAGGGTGGAGGCCTCTTAAGAACAAGCTG
ATGCTCTCTAGGGGACTAGGATTCCAAGCCTTCTCCCCTTCCCCACTCCC
CAGGCCTCATCAAAGTGTGCCACCAAGGTTGAATGGTACCAGTGCCATTT
AGGAAGCACAGAAGAAAGAGCTGCATTCGTGTCTGGACCAGGATGAGGTG
CGGGGAAGTGGGTGTGAGTGTGAGATCACCTGTTGGGGTACACTATGTGT
TGGGGCACACTTCTTCTCCTGCGGAAAGCACTCACTGATTGGTTCAATAA
GGAGCCAATGGCCTTTATCTAGGCAGGAAAGGGAAGATGGGTCTTCCAGG
CTGAGAGAGAGTCTCTGGGAGAAGAATCTGGCTGGGGAAGCTTTGCCAGT
GTCACATGGAGGCGGAAGGAACGGACCTGGGACTGACGGAGAGGTGACAG
GCCCCGGGGCAGGGCTTTAGGCCAGGAATAGTAGGGTTTAATTTGTATGA
ACTAGCTGGGCGTCTACCCAGCTATACTGCCTAAGCTTTCATAAATATTA
AGAAGCCCTTGCGTTGTTATTTACAGCTGGCGGATCCCAAGTCACCCTGG
TGATAGTCTCCCCCCCTTAGTGAAACCCGAGTCCCGGCCCCCTCGCACTT
ACTAAAACTCCCTCCAAACTGCAAAGTAAAAACACCCTTACGGCTCTCAT
ATGGTGTTACTCCTGCATCCCCCTGTCCCTTCCATACGTCGAAGGTCACG
CCCGTGCAACAAGTCTCCTGAACCTCCCTTCCTTTCCTGCTCCTTTTTTG
AACCCGACGCCCGGGTCTCCTCTTCTCATCACCCCCCCATCTCTCCTTCC
ACTCTTCCCCTCACTCCGCATCAACGCCCTTTGTGCCTTTTTCCCTTCCG
TGCCCAAATCTGATTCCTGGTTACACACTATTTCTCACACCCTTTCCTTC
TTGTGCACCTTCCTCTCCCCATCTCTATATAAGCGCGCGGGCTCACTTCT
ACTACACTCTCTCCATTCTCTATCAGCATAACC
CCACTCTTCATGAGGTGTAGCTGGXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXCCTTTTAAGCCCTGTCCTCACAAACCAG
CCGAGCCGCTGCCCCCTTTAGATCCCCGATTGTGACAGCTATAGGGGATT
GACAGTCCCTAAGAGAGGGCAAGTCAGTTTTCTATGAGGCCAGCATCTTG
GCGAGTGGGGTGCACGCCAGGGAAGCCCACACCTCTGAGAAGATACAGGC
AGCACAAACTGGGCTTGACTGGTGGGAAAGCGGGACAAGGTCTACACAAA
GTCGGGTGGGGAAAGGAAGCAGGGGTGGGTCTGGAAAGATCACGGAGAAA
GTACGTAGGATCAAAACACACTGTAGAAAACTCCCAAAGGAATAATGAAA
AACCAAGATGTTTTAAAAATAGTTATAAGATTCTATCTTTTTAATTAAAA
AATAAATAAATCTTTTCCTATTGCTTAAGACACCTGACACAAGGCTTGGA
GAATGGAGGTGGGACTGACCTGGAAGTCTCCCTCCTAGACTAGCTCTCAC
GGGATTATTGGAAGGTGCTAAGCAAGCTGCCAAGACAGCGAGCATCTCAT
GAACTGTGACCACGGATTGACTGACCCAGGGACATATCACGATGCTGAGA
CAGCGGTGCTTGTCATTTAAGGCCCCCTCCCCAATAGGGGATCCATGCTT
GGTAGTGTCAACCATGCTAGCCCCCCGCGGATGGAGAGACCTCGCCTCCC
TAAAGGGCAACCCCCTTACTGCCTTTTTCCCTAAACCGATCTAATTCTCC
TATTTGTGATCTAATGGCCTTACCCTGATTGCCCACCGATAAAATATCTT
CTCCTCCCCCCCTCCATCAAAATAATCCTTTTTTTTTGCCTGGGCATGGT
TAACCCCTTTCCTCGTATTCTCTTCCTGGCTCCTAAATTGCCTTTCCCTT
TCTTCAATAAACCCCGTTCTTTGGGATCGGCCCCCACCCCCTTTTCTGGT
TATAACTACCTCCCTAACCCCTTAGAGCTCCCCTGTCAATGGCGCTTGTC
TGTAACGCCATCCTATACAACTTGTTTTACATTCCTTGCAATTCCTTGTG
GCCACTTCTGTTTTTCTTTGCTTGAGCAGACTTTTTTTCCTTCTCTTTCT
CCCTGTTTCTTCTTTACTCACCCCCTCTACTCTGTTCATTCCTCCCCCAT
TCTCGTCTTTTTTCACTTCTCTACCATATCTACC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no123_l03.b1 MSMg01no123_l03.b1 CHROMAT_FILE:
MSMg01no123_l03.b1 PHD_FILE: MSMg01no123_l03.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:33:46 2005
         (326 letters)



>mm_chr13_24478946_24479671
          Length = 726

 Score =  569 bits (294), Expect = e-166
 Identities = 318/326 (97%)
 Strand = Plus / Minus

                                                                       
Query: 1   gattcagaaaagggagctcaggcagccaggatgtggggatgagggtggaggcctcttaag 60
           ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct: 526 gattcagaaaagggagctcagacagccaggatgtggggatgagggtggaggcctcttaag 467

                                                                       
Query: 61  aacaagctgatgctctctaggggactaggattccaagccttctccccttccccactcccc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 466 aacaagctgatgctctctaggggactaggattccaagccttctccccttccccactcccc 407

                                                                       
Query: 121 aggcctcatcaaagtgtgccaccaaggttgaatggtaccagtgccatttaggaagcacag 180
           ||||||||||||||||||||||||||||||||| |||||||||||||||||| |||||||
Sbjct: 406 aggcctcatcaaagtgtgccaccaaggttgaatagtaccagtgccatttagggagcacag 347

                                                                       
Query: 181 aagaaagagctgcattcgtgtctggaccaggatgaggtgcggggaagtgggtgtgagtgt 240
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 346 aagaaagagctgcattcatgtctggaccaggatgaggtgcggggaagtgggtgtgagtgt 287

                                                                       
Query: 241 gagatcacctgttggggtacactatgtgttggggcacacttcttctcctgcggaaagcac 300
           |||||||||||||||||||||||||||||||||||||||||| || ||| ||||||||||
Sbjct: 286 gagatcacctgttggggtacactatgtgttggggcacacttcctcaccttcggaaagcac 227

                                     
Query: 301 tcactgattggttcaataaggagcca 326
           ||||||||||||| ||||||||||||
Sbjct: 226 tcactgattggtttaataaggagcca 201


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: 13
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: 326
Length of database: 726
Length adjustment: 9
Effective length of query: 317
Effective length of database: 717
Effective search space:   227289
Effective search space used:   227289
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= MSMg01no123_l03.g1 MSMg01no123_l03.g1 CHROMAT_FILE:
MSMg01no123_l03.g1 PHD_FILE: MSMg01no123_l03.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:33:46 2005
         (330 letters)



>mm_chr13_24336589_24337318
          Length = 730

 Score =  615 bits (318), Expect = e-180
 Identities = 327/330 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   ttgtgacagctataggggattgacagtccctaagagagggcaagtcagttttctatgagg 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 ttgtgacagctataggggattgacagtccctaagagagggcaagtcagttttctatgagg 260

                                                                       
Query: 61  ccagcatcttggcgagtggggtgcacgccagggaagcccacacctctgagaagatacagg 120
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 gcagcatcttggcgagtggggtgcacgccagggaagcccacacctctgagaagatacagg 320

                                                                       
Query: 121 cagcacaaactgggcttgactggtgggaaagcgggacaaggtctacacaaagtcgggtgg 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 321 cagcacaaactgggcttgactggtgggaaagcgggacaaggtctacacaaagtagggtgg 380

                                                                       
Query: 181 ggaaaggaagcaggggtgggtctggaaagatcacggagaaagtacgtaggatcaaaacac 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 ggaaaggaagcaggggtgggtctggaaagatcacggagaaagtacgtaggatcaaaacac 440

                                                                       
Query: 241 actgtagaaaactcccaaaggaataatgaaaaaccaagatgttttaaaaatagttataag 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 441 actgtagaaaactcccaaaggaataatgaaaaaccaagatgttttaaaaatagttttaag 500

                                         
Query: 301 attctatctttttaattaaaaaataaataa 330
           ||||||||||||||||||||||||||||||
Sbjct: 501 attctatctttttaattaaaaaataaataa 530


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: 17
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: 330
Length of database: 730
Length adjustment: 9
Effective length of query: 321
Effective length of database: 721
Effective search space:   231441
Effective search space used:   231441
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)