BAC Information

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BAC

Clone NameMSMg01-125F05
Chromosome6 (Build37)
Map Location 90,965,004 - 90,965,545
singlet/doubletsinglet
Overlap geneNup210
Upstream geneV1ra4, V1ra3, V1rb2, V1rb1, V1ra1, LOC625050, V1ra7, V1ra8, V1rb3, LOC100043191, V1r-ps5, V1ra9, BC048671, Chst13, Uroc1, Zxdc, Ccdc37, Klf15, Aldh1l1, Slc41a3, Iqsec1, LOC100043646, EG665685
Downstream geneHdac11, Fbln2, LOC665716, Wnt7a, LOC100043659, LOC625420, Chchd4, Tmem43, Xpc, Lsm3, Slc6a6, Grip2, C130022K22Rik, 4930590J08Rik, Fgd5
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-125F05.T7 (MSMg01no125_f05.b1)MSMg01-125F05.TJ (MSMg01no125_f05.g1)
ACCAG334444AG334445
length708692
length of high quality
(start - end)
489 (49 - 537)486 (78 - 563)
definitionCHROMAT_FILE: MSMg01no125_f05.b1 PHD_FILE: MSMg01no125_f05.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:37:20 2005CHROMAT_FILE: MSMg01no125_f05.g1 PHD_FILE: MSMg01no125_f05.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:37:20 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
TCCATCATAAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGCCGC
GGAATTCTTTGTTTTCCCTGAGCCCCATTTTTTAATGGGGTTATTTGATT
TTCTGAAGTCCACCTTCTTGAGTTCTTTATATATGTTGGATATTAGTCCC
CTATCTGATTTAGGATAGGTAAAGATCCTTTCCCAGTCTGTTGGTGGTCT
TTTTGTCTTATTGACGGTGTCTTTTGCCTTGCAGAAACTTTGGAGTTTCA
TCAGGTCCCATTTGTCAATTCTCGATCTTACAGCACAAGCCATTGCTGTT
CTGTTCAGGAATTTTTCCCCTGTGTCCATATCTTCAAGGCTTTTCCCCAC
TTTCTCCTCTATAAGTTTCAGTGTCTCTGGTTTTATGTGAAGTTCCTTGA
TCCACTTAGATTTGACCTTCGTACAAGGAGATAAGTATGGATCGATTCGC
ATTCTTCTACACGATAACAACCAGTTGTGCCAGCACCAATTGTTGAAAAT
GCTGTCTTTCTTCCACTGGATGGTTTTAGCTCCCTTGTCGAAGATCAAGT
GATCATAGGTGCGTGGGTTCATTTCTGGGTCTTCAATTCTATTCCATTGG
CCTACTTGCCTGCCTCTATACCAGTACCATGCAGTTTTTATCACAATTTG
CTCTGCAGTAAAGCTTTAGGTCTGGCATGGGGATTCCGCCAGAAGTTCTC
TTATCCTT
ACCCACGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXCAGAAAAGACAGGCAGGGCTACC
ACTGAGAGGTCAGGTTGGGATGGGAGGATGGAGACTCTACACTGTCCTCA
TGAGAGATACTCCCACAGAGAAAGATAGGAAAGCCCACTCCTTTCAGTAA
TCTATTTGTCTGTGATGACCTAAGGTCTTAGTCACCCTCTACAGTTCCTG
GGGTACCTTTCTCTAAGAGTCTTCTGGAACTGTGCAGTGCCCAGTAGCCC
TTTGTCTCCTGACTCCCATTTGGCTTGTGTAAGAGGCCCTTGAGCTAGTG
TTTGCTCATCTTAGTGTTAGAGGACAGCTTTATGGCCAGAAGTGCACGCA
CACACGCACGCACACACACCCTGTTATCAAAGCCTCTTCCTGTTGTCTCT
GGTTTTCAAGGCAGGACTCCTGAGTATCCTAGCATGCTGGGTGGTAGCTG
TCCTCGTGGCTTTGGCTTGATGCACAGCTGTTCTGCTACAGTCCTTTCTG
ACTCTTCCTCCCAGTCTCTGTTGAAGTTATCATAGGGCCTTAGTGACAAA
GTTCCTTTCACTTGCCTCCAGGTCCTTGTTACAATAGCATTGTGCTTCAA
GAGTCTGGTTCTTTCATCCCCTTGGTTCCGTGGAAAGATAAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no125_f05.g1 MSMg01no125_f05.g1 CHROMAT_FILE:
MSMg01no125_f05.g1 PHD_FILE: MSMg01no125_f05.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:37:20 2005
         (486 letters)



>mm_chr6_90965004_90965889
          Length = 886

 Score =  673 bits (348), Expect = 0.0
 Identities = 449/542 (82%), Gaps = 90/542 (16%)
 Strand = Plus / Minus

                                                                       
Query: 1   cagaaaagacaggcagggctaccactgagaggtcaggttgggatgggaggatggagactc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 542 cagaaaagacaggcagggctaccactgagaggtcaggttgggatgggaggatggagactc 483

                                                                       
Query: 61  tacactgtcctcatgagagatactcccacagagaaagataggaaagcccactcctttcag 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 482 tacactgtcctcatgagagatactcccacagagaaagataggaaagcccactcctttcag 423

                                                                       
Query: 121 taatctatttgtctgtgatgacctaaggtcttagtcaccctctacagttcctggggtacc 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 422 taatctatttgtctgtgatgacctaaggtcttagtcaccctctacagttcctggggtacc 363

                                                                       
Query: 181 tttctctaagagtcttctggaactgtgcagtgcccagtagccctttgtctcctgactccc 240
           |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 362 tttctctaagagtcttctggaattgtgcagtgcccagtagccctttgtctcctgactccc 303

                                                                       
Query: 241 atttggcttgtgtaagaggcccttgagctagtgtttgctcatcttagtgttagaggacag 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 302 atttggcttgtgtaagaggcccttgagctagtgtttgctcatcttagtgttagaggacag 243

                                                                       
Query: 301 ctttatggccagaagtgcacgcacac---------------------------------- 326
           ||||||||||||||||||||||||||                                  
Sbjct: 242 ctttatggccagaagtgcacgcacacccacacacacacacacacacacacacacacacac 183

                                                                       
Query: 327 --------------------------------------------------------acgc 330
                                                                   ||||
Sbjct: 182 acacacacacacacacacgcacgcacgcacgcacgcacgcacacacgcacacgcacacgc 123

                                                                       
Query: 331 acgcacacacaccctgttatcaaagcctcttcctgttgtctctggttttcaaggcaggac 390
           |||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 122 acgcacacacaccctgttatcaaagcctcttcctgttgtctctggtcttcaaggcaggac 63

                                                                       
Query: 391 tcctgagtatcctagcatgctgggtggtagctgtcctcgtggctttggcttgatgcacag 450
           |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 62  tcctgagtatcctagcatgctgggtggtagctgtcctcatggctttggcttgatgcacag 3

             
Query: 451 ct 452
           ||
Sbjct: 2   ct 1


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: 24
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 486
Length of database: 886
Length adjustment: 10
Effective length of query: 476
Effective length of database: 876
Effective search space:   416976
Effective search space used:   416976
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)