BAC Information

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BAC

Clone NameMSMg01-108L08
Chromosome17 (Build37)
Map Location 86,831,553 - 86,986,610
singlet/doubletdoublet
Overlap genePrkce
Upstream gene1700106N22Rik, EG668850, LOC383282, LOC100043902, Six3, LOC100043717, Six2, LOC100043903, Srbd1, LOC545228
Downstream geneEpas1, 1700090G07Rik, Atp6v1e2, Rhoq, Pigf, Cript, EG433144, Socs5, Mcfd2, Ttc7, 1700011E24Rik, Calm2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-108L08.T7 (MSMg01no108_l08.b1)MSMg01-108L08.TJ (MSMg01no108_l08.g1)
ACCAG322084AG322085
length735712
length of high quality
(start - end)
230 (71 - 300)452 (80 - 531)
definitionCHROMAT_FILE: MSMg01no108_l08.b1 PHD_FILE: MSMg01no108_l08.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:11:39 2005CHROMAT_FILE: MSMg01no108_l08.g1 PHD_FILE: MSMg01no108_l08.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:11:39 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(86,831,553 - 86,831,782)(86,986,159 - 86,986,610)
sequence
ATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAAT
TCATACAAGTTGTCCAGAAAGTTGTTTAACACAATGGATGTTCTCCATAA
ATTCTGGAGCCCCTGCTGTTGCACCCCGTCTCCATGTTACTGTGTGCCCC
TCTTCCATATCACTCTGTGTCCCATCCTCCATGTTACTGAGTATTTTTAT
CTGCACTCGTGTTAGCAGAGTTCTACAAGAGTGAGTTCATGGGAGCCATG
AGGCTCTATGCAAAACTTGGATGAAACACCCTGCGGGGCATGTCTGGGCT
CCCCAAGGCAGGCTGGACTGTGTAGAAACTATCAGATCTCTGGGGGACTC
CGGGCTTATCAAGTCATGGTTCCCGGGGTGTTACTCTGAGGTTCATGTAT
GCCATGATTTCCCAGGGCGAGTAGACAGATTACATACCCAAGCTGAAGGT
GCTGAAGAGAGTCAGGCCACGGCATAGACAGAGTGGGCCGAGCGTTTAAT
GTTACCCAGGTTGCTTCCTGATTAAGTCTCTAACCCCTTGAAGTATATAG
AAATATCTAGAGTGTGTTCCGTTGTATCCTGGCTAAAATATTGCTTTTAA
CATGTCGAGTTTCCTTATTTATGCCCTTTATTCCTCTTGCCTTTTAAAGG
CCCTTCATGTGCAAATCAAATCTGTTTCTGAAACTTTCTCCCGTTTCTTT
GTAAGTAACCTTGCGTCTCTTCATCTCAAATTGCA
TTCCCGCGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXTCCGTGGAGTCTGGGAACTGC
CCTAGCCTGTGCTGAGAGGGAGCCCCCTACATGACACATAACAGAACATA
ATGCCATCTTCTCATGCCCAAATGTATGGCTGAAAACTGTAGAGATTTGT
GTTTCAGGGCATGTTCTCTGCTAAGGCTTAAGTCCTTAGATAGCTTCTCT
GTGAGACCCAGAGCGTTCCTATGAGGAGCACAGAGAGGAGAATTGAGTCC
AGGGAGTGTTTGCCTAGAGGGGACATTTGATGACCACTGATACCAATAAT
ACCCATGCTATCACCTACTGGGTCCTGAGCACATTCTATAAGAAAGGTAC
CATGTAAACATCTTACAGGTCAGGAAACTCCAACTTCAGAGAGACAAAGA
GACACTCCCTAGGTCAGTAAGGGACAGCCTGTTATTTAAACACAAGGGTG
CTTGACTTCAGAGTTTTGTTTTTAAAGGTAGACTGTACAACATACATGAA
AAGAGGCGCTCACAGCGACTACTAAAAAGTATTGCAGAACTGGATCGCTA
CACAGTTAGGGTAGTTCCGCCCAACCTTGACAGAGATGCCGCTGGAATGT
GTAAATCAGCTATGAGCTCCATACAGCAACTAGATAGCATTCACACTAAT
GCCTACTATGTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no108_l08.b1 MSMg01no108_l08.b1 CHROMAT_FILE:
MSMg01no108_l08.b1 PHD_FILE: MSMg01no108_l08.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:11:39 2005
         (230 letters)



>mm_chr17_86831353_86831982
          Length = 630

 Score =  437 bits (226), Expect = e-127
 Identities = 229/230 (99%)
 Strand = Plus / Plus

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

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

                                                                       
Query: 121 gtatttttatctgcactcgtgttagcagagttctacaagagtgagttcatgggagccatg 180
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 gtatttttatctgcactagtgttagcagagttctacaagagtgagttcatgggagccatg 380

                                                             
Query: 181 aggctctatgcaaaacttggatgaaacaccctgcggggcatgtctgggct 230
           ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 aggctctatgcaaaacttggatgaaacaccctgcggggcatgtctgggct 430


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: 10
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: 230
Length of database: 630
Length adjustment: 9
Effective length of query: 221
Effective length of database: 621
Effective search space:   137241
Effective search space used:   137241
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= MSMg01no108_l08.g1 MSMg01no108_l08.g1 CHROMAT_FILE:
MSMg01no108_l08.g1 PHD_FILE: MSMg01no108_l08.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:11:39 2005
         (452 letters)



>mm_chr17_86986108_86986959
          Length = 852

 Score =  828 bits (428), Expect = 0.0
 Identities = 446/452 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   tccgtggagtctgggaactgccctagcctgtgctgagagggagccccctacatgacacat 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 503 tccgtggagtctgggaactgccctagcctgtgctgagagggagccccctacatgacacat 444

                                                                       
Query: 61  aacagaacataatgccatcttctcatgcccaaatgtatggctgaaaactgtagagatttg 120
           | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 443 accagaacataatgccatcttctcatgcccaaatgtatggctgaaaactgtagagatttg 384

                                                                       
Query: 121 tgtttcagggcatgttctctgctaaggcttaagtccttagatagcttctctgtgagaccc 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 383 tgtttcagggcatgttctctgctaaggcttaagtccttagatagcttctctgtgagaccc 324

                                                                       
Query: 181 agagcgttcctatgaggagcacagagaggagaattgagtccagggagtgtttgcctagag 240
           ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct: 323 agagcgttcctatgaggagcatagagaggagaattgagtccagggagtgtttgcctagag 264

                                                                       
Query: 241 gggacatttgatgaccactgataccaataatacccatgctatcacctactgggtcctgag 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 263 gggacatttgatgaccactgataccaataatacccatgctatcacctactgggtcctgag 204

                                                                       
Query: 301 cacattctataagaaaggtaccatgtaaacatcttacaggtcaggaaactccaacttcag 360
           |||||||||||||||||||||| ||||||||| |||||||||||||||||||||||||| 
Sbjct: 203 cacattctataagaaaggtaccgtgtaaacattttacaggtcaggaaactccaacttcaa 144

                                                                       
Query: 361 agagacaaagagacactccctaggtcagtaagggacagcctgttatttaaacacaagggt 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 143 agagacaaagagacactccctaggtcagtaagggacagcctgttatttaaacacaagggt 84

                                           
Query: 421 gcttgacttcagagttttgtttttaaaggtag 452
           |||||||||||||||||||| |||||||||||
Sbjct: 83  gcttgacttcagagttttgtatttaaaggtag 52


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: 20
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: 452
Length of database: 852
Length adjustment: 10
Effective length of query: 442
Effective length of database: 842
Effective search space:   372164
Effective search space used:   372164
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)