BAC Information

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BAC

Clone NameMSMg01-400O17
Chromosome5 (Build37)
Map Location 120,014,627 - 120,164,950
singlet/doubletdoublet
Overlap geneLOC100039529, LOC100039542, Tbx3
Upstream geneThrap2, LOC100039488, EG665194
Downstream geneEG433945, Tbx5, Rbm19, LOC100039609, Lhx5, Sdsl, Sds, 1300012G16Rik, Slc24a6, Tpcn1, Iqcd, 1110008J03Rik, Ddx54, LOC546886, Rasal1, Dtx1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-400O17.T7 (MSMg01no400_o17.b1)MSMg01-400O17.TJ (MSMg01no400_o17.g1)
ACCAG500427AG500428
length814768
length of high quality
(start - end)
249 (74 - 322)249 (76 - 324)
definitionCHROMAT_FILE: MSMg01no400_o17.b1 PHD_FILE: MSMg01no400_o17.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:14:23 2005CHROMAT_FILE: MSMg01no400_o17.g1 PHD_FILE: MSMg01no400_o17.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:14:23 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(120,164,702 - 120,164,950)(120,014,627 - 120,014,874)
sequence
NCCTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTCAGAGAAGCGCG
GAATTCCCATAGATTATCAGGAGGAGAATCAAAGGCAGAAAGACACACAA
TTGAGGTGGGCCCCGATGTCACAGGTTCAAGGATAAAATCCACAGCCACA
GCCCACGCCTGCCACACCAGCACTCTTCTGTCAAACAGCGATGTGGGGGG
AAGGAGGAGGAGAAGAAGGCAGAAGCAAATGCAACCATTCGGAAAAAAAT
CCGTAATTATTAGCATGATGACATTGCTGTATCATCATTAATATTCAATC
TCTTCGCAATCCTATCTGATTTCTTNCTTCTTTTCTTTTATTTTTAAGAT
TTATTTATTTATTTATTTATTATATGCAAGCACACTGGAGCTGTCTTCAG
ACACACCAGAATAGGTCACCCCATCTCATTACGGATGGTTGTGAGCCACC
ATGTGGTTGCTGGTACTTCAATTCAGCACCTTCATACTATCAGTCTGTGT
TCTTATCTGTTGAGCCATCTTTTCATTTCTTTCATTTGACTTTCTATTGT
CATTATTTGTTGCCCCTTTCTACTCTCCTCTTACACCTCCTACATTTTCA
ACTATTCCGTCTAAGACTTCCTGCTTCTCCTCGTCTATGCCAATTGATCT
TTCCTCGGTCACCGGACCCTATATTTTTCTTTTTATCCGTCATCATCAAA
ATCCTACCTCATTTTTTCCCCCTCTCCATTTCTCCTTACTCCTCATCCTT
TATATCATCTATTCTCTCTCCTCCCTCGATCTCTTTCGTTTATTTCCCAC
CATTCATGCCTCTT
NCCCGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXTGATTGAAGGCTTGGAACCATCTCC
TATGGATGCAAACCCACACTTGTGGGAAGACTTTCAGGGACATTTTTTAC
TGAGTTAAACACAGAGTTACTGAGTGATCCAGCAGTCTGAGCCTCATTAT
CTACCCAGGAAAACTGAAAAGCTTGACAGGAGGCAGGCATGGTAAAGCCA
TGCTAAGATCCCATCCATTGAGTGTCTGAGACAAAAAATTAAGCGTTCAA
AGACTGGGGTGGGGGAGGTGCACTTTTTCTAGGACCTGAGTTCGAATCCC
CAGGACTTAGGTGAAAATTTAGGTATAGTGATTATGCCCATGACCTAAAT
AATGGCGGTCAGGTGAAGACGGGGGTTCCTGGGGCTCACTGGCCAACAAG
TCCAGCTTAAATGGTGAGCTTTAGGTTCTATGAGAGACCCTGTCTCAAGA
AATGAAGTGATACAATAGGCAGAGTTCACTATAAAGATCAGAGACCAGCC
AGGTGTGAGGCCAACCTGGNCCAATCTCTCTCTCTCTCTCTCTCTCTCTC
TCTCTCTCTCTCTAACTCTTGCTAAACGTGAAGCTGGTTAGTGTTCAGAG
GCAAGGACATAACTTTTTTTTTTTTCTTCCATCCCCCCTGCACCTCAACG
CCTACCTTTTCTTATCTGTCTTCTCGCTTACTTATTATCCCTTCTTCCCT
CCCATTTCTCTTATCTTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no400_o17.b1 MSMg01no400_o17.b1 CHROMAT_FILE:
MSMg01no400_o17.b1 PHD_FILE: MSMg01no400_o17.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:14:23 2005
         (249 letters)



>mm_chr5_120164502_120165150
          Length = 649

 Score =  427 bits (221), Expect = e-124
 Identities = 242/249 (97%)
 Strand = Plus / Minus

                                                                       
Query: 1   gagaatcaaaggcagaaagacacacaattgaggtgggccccgatgtcacaggttcaagga 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 449 gagaatcaaaggcagaaagacacacaattgaggtgggccccgatgtcacaggtccaagga 390

                                                                       
Query: 61  taaaatccacagccacagcccacgcctgccacaccagcactcttctgtcaaacagcgatg 120
           |||||||||||||||||||||| ||||||||||||||||||||||||| |||||||||||
Sbjct: 389 taaaatccacagccacagcccatgcctgccacaccagcactcttctgttaaacagcgatg 330

                                                                       
Query: 121 tggggggaaggaggaggagaagaaggcagaagcaaatgcaaccattcggaaaaaaatccg 180
           |||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 329 tggggggaaggaggaggagaagaaggcagaagcaaatgcaaccattcgaaaaaaaatccg 270

                                                                       
Query: 181 taattattagcatgatgacattgctgtatcatcattaatattcaatctcttcgcaatcct 240
           |||||||||||||||||||||||||||||||| ||||||| |||||||||||||||||| 
Sbjct: 269 taattattagcatgatgacattgctgtatcattattaatagtcaatctcttcgcaatccc 210

                    
Query: 241 atctgattt 249
           |||||||||
Sbjct: 209 atctgattt 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: 9
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: 249
Length of database: 649
Length adjustment: 9
Effective length of query: 240
Effective length of database: 640
Effective search space:   153600
Effective search space used:   153600
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)
Query= MSMg01no400_o17.g1 MSMg01no400_o17.g1 CHROMAT_FILE:
MSMg01no400_o17.g1 PHD_FILE: MSMg01no400_o17.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:14:23 2005
         (249 letters)



>mm_chr5_120014427_120015075
          Length = 649

 Score =  480 bits (248), Expect = e-140
 Identities = 248/248 (100%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  agggacattttttactgagttaaacacagagttactgagtgatccagcagtctgagcctc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 agggacattttttactgagttaaacacagagttactgagtgatccagcagtctgagcctc 320

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

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

                   
Query: 241 aggtgcac 248
           ||||||||
Sbjct: 441 aggtgcac 448


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: 11
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: 249
Length of database: 649
Length adjustment: 9
Effective length of query: 240
Effective length of database: 640
Effective search space:   153600
Effective search space used:   153600
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)