BAC Information

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BAC

Clone NameMSMg01-236J13
Chromosome4 (Build37)
Map Location 52,005,408 - 52,185,376
singlet/doubletdoublet
Overlap genenone
Upstream geneLOC666681, LOC100040814, LOC384015
Downstream geneLOC100041026, LOC100041038, LOC666724, Smc2, LOC100040883, 4930547C10Rik, LOC100040908, LOC666761, Olfr275, Olfr274-ps1, Olfr273, LOC230185, Olfr272, Olfr271-ps1, Olfr270, 1700054F22Rik, Nipsnap3a, Abca1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-236J13.T7 (MSMg01no236_j13.b1)MSMg01-236J13.TJ (MSMg01no236_j13.g1)
ACCAG401803AG401804
length726798
length of high quality
(start - end)
576 (36 - 611)137 (183 - 319)
definitionCHROMAT_FILE: MSMg01no236_j13.b1 PHD_FILE: MSMg01no236_j13.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:54:12 2005CHROMAT_FILE: MSMg01no236_j13.g1 PHD_FILE: MSMg01no236_j13.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:54:12 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(52,005,408 - 52,005,982)(52,185,240 - 52,185,376)
sequence
GCTCCCGCTAAACGACTCACTATATCCAGAGGATCCGCGGAATTCCACCA
ATGTCACCGCCAGTTTCCAAGAAATTCAGTACAAACTGCATAGTAGGATC
CAGAGAGTTCCACCCGCATCACAGATGAATGATCAAGCTAGTCTTGCATT
GATCCAGCTGGCAAGTTAAGAGTAACTATAATATGCCAAACGTCAGCTGC
CCAGGAAATATAGCCAACCCTTGGGTGACAGTTTCCTGTTCACAGTCACA
GACTGTGATACCTCCCTGTATTACTCAACTGTGAAATAGCATCAGCTATC
CCTTCTACAAACAAACTCTAAATGTCAGACTTAGCTTAGAAGTGCCCTCT
TCTAGTCATGTTCCTTTCTATGAGCATACTGATCTGCCTGTTTTGCTTAT
CTTTAAAACTTGTACACTGCTTGCCAATTACTAAATAGTTCTTATATTTT
AATTAATTTATTGATTTATTGTTTTTCATACTTTCTGACTAATGTCCCCT
CCCTCTATTCCACCCAGTCCCACTCCATCTCCTCTAGCATCCAAATACAC
CCTCCTCTGTTTTGCTTCAGAAAAGACCAGGCCTTCCAAGAATATCCATA
GAACGTGGCATAACAAAATGCACTAATACTAGGTACTAGCCCTCGTATCA
CGGCTGGACTAGTCAATGCACCAGGAGGCGAACAGTCCTATGAGTATGCA
AAAGAGTCAGAGACACCTTCACTTGN
CTTTTCCTCTTTCTCCCTTTTTATATTTCCCTTTTATTTTTATCCCCATC
TATGACAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXACAACTCAAAAGTAATTGCCTACACA
TACTGTATCAGTATAGAGAGTTACCCACTAAGATATCTGATGGAGCTGTT
AAAGGAAAGTATAAGAACCTAAAAGATGCCTGAACTGTATGGAAACCTTG
AAGGAAAAGTGAACGTTGTTAGTTGAAATTTCATGAAAATTCAAACAATG
TTTTGCAATTCAAAAATACTGTAGAATAAAAAGACAATCTATAACTAGCA
TAATACTTTTATATTACGATAGCTTATTTACTTTTATGAAAGAGAAATCA
TTTTAGCATTAATATGTTTTTTAACCCCCCCCCCCCCCCCATTAACATGT
TAATGATGACTCCTTATTTGAGCCCCTTATATAAAACTTATGTTAATGAT
GGTCCGAGTGTGGATTATTATTTTTACTACAGATGACACTACCTGACATA
CATTCACATGAAAAGATGTTCCATATTTAAGTCTTGCCCCAGCATGCTTC
ATCCTTCTTTCCGACTTCACTTTCATGTATGTTACCTCCTCCTTCTGGAT
GAATACACACCTGTGTTTGTTTCCGACAAATATCCTAATATGAATGTAAT
GTTCCAATCTTTATCCGAGTACCCCTTGTTTTTCCATTTATTTGCCTCTA
CCTTGATAACGTCCCCCGGAATAAATCCTTGCCTTTTATCTTGCAATT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no236_j13.b1 MSMg01no236_j13.b1 CHROMAT_FILE:
MSMg01no236_j13.b1 PHD_FILE: MSMg01no236_j13.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:54:12 2005
         (576 letters)



>mm_chr4_52005207_52006182
          Length = 976

 Score = 1044 bits (540), Expect = 0.0
 Identities = 566/576 (98%), Gaps = 4/576 (0%)
 Strand = Plus / Plus

                                                                       
Query: 4   ggaattccaccaatgtcaccgccagtttccaagaaattcagtacaaactgcatagtagga 63
           ||||||||||||||| ||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 202 ggaattccaccaatgccacagccagtttccaagaaattcagtacaaactgcatagtagga 261

                                                                       
Query: 64  tccagagagttccacccgcatcacagatgaatgatcaagctagtcttgcattgatccagc 123
           |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 262 tccagagagttccacctgcatcacagatgaatgatcaagctagtcttgcattgatccagc 321

                                                                       
Query: 124 tggcaagttaagagtaactataatatgccaaacgtcagctgcccaggaaatatagccaac 183
           ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||| 
Sbjct: 322 tggcaagttaagagtaactataatatgccaaacgtcagctgcctaggaaatatagccaat 381

                                                                       
Query: 184 ccttgggtgacagtttcctgttcacagtcacagactgtgatacctccctgtattactcaa 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 382 ccttgggtgacagtttcctgttcacagtcacagactgtgatacctccctgtattactcaa 441

                                                                       
Query: 244 ctgtgaaatagcatcagctatcccttctacaaacaaactctaaatgtcagacttagctta 303
           |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 442 ctgtgaaatagcatcagctatcccttctacaaacaaac-ctaaatgtcagacttagctta 500

                                                                       
Query: 304 gaagtgccctcttctagtcatgttcctttctatgagcatactgatctgcctgttttgctt 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 gaagtgccctcttctagtcatgttcctttctatgagcatactgatctgcctgttttgctt 560

                                                                       
Query: 364 atctttaaaacttgtac---actgcttgccaattactaaatagttcttatattttaatta 420
           ||||||||||||||||    ||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 atctttaaaacttgtagttaactgcttgccaattactaaatagttcttatattttaatta 620

                                                                       
Query: 421 atttattgatttattgtttttcatactttctgactaatgtcccctccctctattccaccc 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 atttattgatttattgtttttcatactttctgactaatgtcccctccctctattccaccc 680

                                                                       
Query: 481 agtcccactccatctcctctagcatccaaatacaccctcctctgttttgcttcagaaaag 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 agtcccactccatctcctctagcatccaaatacaccctcctctgttttgcttcagaaaag 740

                                               
Query: 541 accaggccttccaagaatatccatagaacgtggcat 576
           ||||||||||||||||||||||||||||||||||||
Sbjct: 741 accaggccttccaagaatatccatagaacgtggcat 776


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: 25
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: 576
Length of database: 976
Length adjustment: 10
Effective length of query: 566
Effective length of database: 966
Effective search space:   546756
Effective search space used:   546756
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= MSMg01no236_j13.g1 MSMg01no236_j13.g1 CHROMAT_FILE:
MSMg01no236_j13.g1 PHD_FILE: MSMg01no236_j13.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:54:12 2005
         (137 letters)



>mm_chr4_52185040_52185576
          Length = 537

 Score =  250 bits (129), Expect = 3e-71
 Identities = 135/137 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   atatctgatggagctgttaaaggaaagtataagaacctaaaagatgcctgaactgtatgg 60
           ||||||||||||||||||||||||||||||||||| |||||||||| |||||||||||||
Sbjct: 337 atatctgatggagctgttaaaggaaagtataagaatctaaaagatgtctgaactgtatgg 278

                                                                       
Query: 61  aaaccttgaaggaaaagtgaacgttgttagttgaaatttcatgaaaattcaaacaatgtt 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 277 aaaccttgaaggaaaagtgaacgttgttagttgaaatttcatgaaaattcaaacaatgtt 218

                            
Query: 121 ttgcaattcaaaaatac 137
           |||||||||||||||||
Sbjct: 217 ttgcaattcaaaaatac 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: 6
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: 137
Length of database: 537
Length adjustment: 8
Effective length of query: 129
Effective length of database: 529
Effective search space:    68241
Effective search space used:    68241
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)