BAC Information

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BAC

Clone NameMSMg01-235E04
Chromosome7 (Build37)
Map Location 12,210,226 - 12,304,573
singlet/doubletdoublet
Overlap geneLOC628853, V1rg1
Upstream geneV1rl1, EG628596, Nlrp4b, LOC333184, V1re13, BQ559217, LOC637237, LOC236479, EG665879, Zscan4b, LOC665793, EG665798, Gm397, Zscan4-ps1, LOC635187, LOC100042997, LOC100042293, Zscan4d, LOC628737, LOC676750, LOC672893, LOC546931, LOC675762, Zscan4e, LOC665857, LOC665861, Zscan4f, LOC673742, LOC665887, LOC637541, LOC100042361, Zscan4-ps2, LOC675782, LOC100042386, LOC665926, LOC637571, LOC100043042
Downstream geneV1rg2, EG628898, V1rg5, V1rg6, LOC665999, V1rg4, LOC100042423, LOC628946, LOC100043075, LOC100042433, V1rg7, LOC100042437, V1rg3, LOC100042446, LOC100043092, V1rg9, V1rg12, V1rg8, V1rg11, Zfp551, EG666065, Zfp606, 2900092C05Rik, EG637908, EG666085, Vmn2r55, LOC629079
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-235E04.T7 (MSMg01no235_e04.b1)MSMg01-235E04.TJ (MSMg01no235_e04.g1)
ACCAG400891AG400892
length727740
length of high quality
(start - end)
325 (45 - 369)289 (77 - 365)
definitionCHROMAT_FILE: MSMg01no235_e04.b1 PHD_FILE: MSMg01no235_e04.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:52:32 2005CHROMAT_FILE: MSMg01no235_e04.g1 PHD_FILE: MSMg01no235_e04.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:52:33 2005
singlet/doubletdoubletdoublet
BLAST hituniqueplural
Map location.(12,304,253 - 12,304,573)(12,210,226 - 12,210,514)
sequence
CTAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCTTTTCAGGGCATAACTACAGAAAAGAGGGCTTTCTACCCCTGCATA
GATGCATGGACCTGTAAACAACATCAGGTAACTGTTGTCAATGAATCTGT
GGATTCCAGAACCTCCCTCCAACCTGCTTGATGGAGATGATTGGTCTATG
GTTTAGCTCATTTGAGTAGCCCTTATGTCTACTGATCTTTTCCTGCCTTT
CACAAGTTCTGTTCTCTAAAATCACTGTAGATGCTGTGTTTTCAAATATT
GAGTCTCTGTCCTTAGTGAAACACAAACATGTATTCCTGTGAGCTCTGCA
CACCTTATTTTTGTCAGCTGCCCCCTCCCTTGAGGGAGCATCATCCTATT
TTAAATGGGCCAGCGGATGGTCCCAGATAGCCCTAACTTTACCTGATGGT
CCTTCAAGTACACTGTCTCAAAGAAGCACAAGGCCTCTCCTCTTATGAAC
ATGACTTAATATTATGGGAACAATGTACTTGGCATGCAGTTTTAATCATG
AAAACTTGAATTTAANATAAACCTTGAAGGGTTCATGGAATTTAATACTT
AACTGGCAGGGTGTGGTAGTTAACACATTTAACCTAGCATAGAGAAGCAA
AGGGAGTATAATTCATCTTATTCCAAGGCCAACCAGGACTATGTTAGGAA
AACCCATTTGCAATGACAAATACAAGA
CGATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXCCTGTTCTGCCTGCACCATGCCTA
CCTAGAAGCTATCATGCTGCTACCTTGATGATAATGGACACGCCCTCTAA
ACCTGTAAGCCAACCCCAATTAAACATTGTTTTTTTTATAAGACTTGCCA
TTGTCAGGGTGTTGGTTCACAGCAGTAAAACACAAAATAAGACAGTTACT
CCCCTGAGACTGGATCCTATAGCCAGGCTAAAAATCAATATAGCCAACAG
AGTAGCAGCTATGGGCAGCAGAGTTCATTTCAAAAGAACCACTCCAGTGG
CATGGGTATTTATGGTCACACCCACCCACACTTTTCCTGACAAGGGGATA
ACCAGAGCTTAAGTGACCCTGATAATTTTGCCAGGAGAAGAGGGAGATTT
GATTCTAGAAGCATTAGCAAAGGTGGGCAGGGAGGAGTGGAATGGGTAGT
GCTGGAAATCAAGGTGTCTTCAATAAGCCTGCTGGACCCATGGATGAAGG
ACCAGATCTTGATCAAGGCTTTCCTATAGATCCCGATGAAGAATGACAAC
AGTGAAATTTATGTGCAAGGATTAAGTGACAATGTGACTTTGGATGATCT
GAAATGCTTCTTTAATCAGTGTGGGACTGTCAAGGTGAACAAAAGAACTG
GGCAAGCCATGATCAATATCTGCATGGATAAGGAAACAGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no235_e04.b1 MSMg01no235_e04.b1 CHROMAT_FILE:
MSMg01no235_e04.b1 PHD_FILE: MSMg01no235_e04.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:52:32 2005
         (325 letters)



>mm_chr7_12304049_12304773
          Length = 725

 Score =  621 bits (321), Expect = 0.0
 Identities = 321/321 (100%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcttttcagggcataactacagaaaagagggctttctacccctgcatagatgcatg 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 525 gaattcttttcagggcataactacagaaaagagggctttctacccctgcatagatgcatg 466

                                                                       
Query: 65  gacctgtaaacaacatcaggtaactgttgtcaatgaatctgtggattccagaacctccct 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 465 gacctgtaaacaacatcaggtaactgttgtcaatgaatctgtggattccagaacctccct 406

                                                                       
Query: 125 ccaacctgcttgatggagatgattggtctatggtttagctcatttgagtagcccttatgt 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 405 ccaacctgcttgatggagatgattggtctatggtttagctcatttgagtagcccttatgt 346

                                                                       
Query: 185 ctactgatcttttcctgcctttcacaagttctgttctctaaaatcactgtagatgctgtg 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 345 ctactgatcttttcctgcctttcacaagttctgttctctaaaatcactgtagatgctgtg 286

                                                                       
Query: 245 ttttcaaatattgagtctctgtccttagtgaaacacaaacatgtattcctgtgagctctg 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 285 ttttcaaatattgagtctctgtccttagtgaaacacaaacatgtattcctgtgagctctg 226

                                
Query: 305 cacaccttatttttgtcagct 325
           |||||||||||||||||||||
Sbjct: 225 cacaccttatttttgtcagct 205


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: 16
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: 325
Length of database: 725
Length adjustment: 9
Effective length of query: 316
Effective length of database: 716
Effective search space:   226256
Effective search space used:   226256
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= MSMg01no235_e04.g1 MSMg01no235_e04.g1 CHROMAT_FILE:
MSMg01no235_e04.g1 PHD_FILE: MSMg01no235_e04.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:52:33 2005
         (289 letters)



>mm_chr7_12210026_12210714
          Length = 689

 Score =  543 bits (281), Expect = e-159
 Identities = 287/289 (99%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  gacacgccctctaaacctgtaagccaaccccaattaaacattgttttttttataagactt 120
           ||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 gactcgccctctaaacctgtaagccaaccccaattaaacattgttttttttataagactt 320

                                                                       
Query: 121 gccattgtcagggtgttggttcacagcagtaaaacacaaaataagacagttactcccctg 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 gccattgtcagggtgttggttcacagcagtaaaacacaaaataagacagttactcccctg 380

                                                                       
Query: 181 agactggatcctatagccaggctaaaaatcaatatagccaacagagtagcagctatgggc 240
           ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 381 agactggatcctatagccaggctaaaaatcaatatagccaacaaagtagcagctatgggc 440

                                                            
Query: 241 agcagagttcatttcaaaagaaccactccagtggcatgggtatttatgg 289
           |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 agcagagttcatttcaaaagaaccactccagtggcatgggtatttatgg 489


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: 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: 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)