BAC Information

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BAC

Clone NameMSMg01-365J07
Chromosome6 (Build37)
Map Location 88,806,978 - 88,975,785
singlet/doubletdoublet
Overlap genePodxl2, LOC100043146, Mcm2, Gpr175
Upstream geneCopg, 8430410A17Rik, LOC665416, H1fx, EG434064, LOC100043131, Rab7, Rpn1, Gata2, Dnajb8, Eefsec, Ruvbl1, Sec61a1, 4933428M03Rik, Mgll, Abtb1
Downstream gene4933427D06Rik, Gm1965, LOC100043153, LOC100043159, EG624483, EG624491, LOC665547, EG624537, Gm839, 4930512J16Rik, Plxna1, Chchd6, Txnrd3, V1r-ps1, V1rb7, V1rb9, V1r-ps2, V1r-ps3, V1ra6, V1ra5, V1rb4, V1r-ps4, V1ra2, V1rb8, V1ra4
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-365J07.T7 (MSMg01no365_j07.b1)MSMg01-365J07.TJ (MSMg01no365_j07.g1)
ACCAG473502AG473503
length752723
length of high quality
(start - end)
420 (63 - 482)478 (57 - 534)
definitionCHROMAT_FILE: MSMg01no365_j07.b1 PHD_FILE: MSMg01no365_j07.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:02:07 2005CHROMAT_FILE: MSMg01no365_j07.g1 PHD_FILE: MSMg01no365_j07.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:02:07 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(88,975,367 - 88,975,785)(88,806,978 - 88,807,455)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCTC
NTTGCCCTTGGTGTTCCTCCTGGGGAATGCCCTGTCTCTATTTAAAAGAA
ATATTGAAAAGTATTGGTGCTTGAAGGTGAGACTCTAAAGGACCTGGGTA
TGTGGAAATGCTAGAGAAATAAATAAAACAAAAACAGGATCCTCCTGATT
TTATCCAGAGAGGATAGAGTAATGCTCACCTAGGGGTAGACACGTGGGGC
CTGGTGCCTCTCATTTCTGAGTGCAGGCTGCTGGTATGTGACTCAGCCAG
TGTGCTCATTGTGTGAGGCTGGGATAGCAAGGCAGCAGTCCTTGATGGAG
ACACAGGTGGAGAAGGAATTTCCAGTCCTCTCTTTCTGCCATAGCTGGGA
AGTTCACAGCCCTCTCAGGCTCCCTGCATCCCCCTTAGCCTCCAATGTCC
CCCTTAAGTCTGTGAAGCATCCCCACCCCCACTCCCATCCTTTCTCCCAT
GCACACATCCCTGACATGCCTCTCATATTCCCCTCAGGCCGTGCTGTTCT
TCCTTTTTCTCCCCACAGACCCCAGCGGTCTCTCAAAACTCTCGACCGCC
TCATTGCTGATTCTGTACCGGTCACCCATTTTCCCTATGACCCTGTTATC
CTGTGGTCCCTTTGGCATTCATACTATTCCCCGTTCCTAATATCCATGAT
TTATTACCCTCTTTTTTTTTTCCCGGACCATTTTTTTCCCTTTCTCCTTT
TN
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXATATATTCTCGGAGTGCATCCAACTTTTACCATACCTACGCTGG
GGCCACACAACCAGACCTCTCATCCTCCACCTTCCCTGTTGATGCTCCTG
TCCTTGAAACCCTGTGGGCTTTTGTTTTGTTTTGTCTGTCTTTGTTTTTG
AGACAGGATTTTTCTGTGTAGCTCTAGCTGTAGACCAGGCTGGTCTCGAA
CTCAGAGACTTGCCTGCCTCTGCTCTGAGTGCTAGGATTAAAGGCGTGTG
CCTCCACCACCGGGCTTCAACACAGTTTTAAAGAGCAAATACCCACCAGT
GCCTGCGGAGTGAGTTCTGGCTTTGGTGTGTGATGTACCAGCTGGGGGCT
CCCTGGAGCAGGAGAGGAGGCTCCACATGGCCGCTCCTGGGAGATCCTGC
GGGCTCCCGGGCAGCCAGCACATGCTCTGTGAACCCTGCTCTCCTCAAAT
GGCTTGCTCCTCCGCCCCTTTCTATTTCTGTCTTTTAACCTCACCATGGT
GCCGGNGCTTGCTTTCTAAATATATCGTGCTGAATGTTTCTCTGGGCTTT
GCACAAATCCCTCCCTTGAAAAATACGGCCGGGGAACCTTATTCTGTCCC
TCTTCCCAGGCAAAAGTGTTCTCTCAAAAATTTTGGATTTTCTGAAAATA
TTTTGGAAGGAACCTCTTTGTTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no365_j07.b1 MSMg01no365_j07.b1 CHROMAT_FILE:
MSMg01no365_j07.b1 PHD_FILE: MSMg01no365_j07.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:02:07 2005
         (420 letters)



>mm_chr6_88975167_88975986
          Length = 820

 Score =  764 bits (395), Expect = 0.0
 Identities = 413/419 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   gttcctcctggggaatgccctgtctctatttaaaagaaatattgaaaagtattggtgctt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 619 gttcctcctggggaatgccctgtctctatttaaaagaaatattgaaaagtattggtgctt 560

                                                                       
Query: 61  gaaggtgagactctaaaggacctgggtatgtggaaatgctagagaaataaataaaacaaa 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 559 gaaggtgagactctaaaggacctgggtatgtggaaatgctagagaaataaataaaacaaa 500

                                                                       
Query: 121 aacaggatcctcctgattttatccagagaggatagagtaatgctcacctaggggtagaca 180
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 499 aacaggatcctcctgatttcatccagagaggatagagtaatgctcacctaggggtagaca 440

                                                                       
Query: 181 cgtggggcctggtgcctctcatttctgagtgcaggctgctggtatgtgactcagccagtg 240
           ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct: 439 cgtggggcctggtgcctctcatttctgagtgcaagctgctggtatgtgactcagccagtg 380

                                                                       
Query: 241 tgctcattgtgtgaggctgggatagcaaggcagcagtccttgatggagacacaggtggag 300
           |||||| ||||||||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct: 379 tgctcagtgtgtgaggctgggatagcaaggcagcagtccttgatggagacacagatggag 320

                                                                       
Query: 301 aaggaatttccagtcctctctttctgccatagctgggaagttcacagccctctcaggctc 360
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 319 aaggaatttccaggcctctctttctgccatagctgggaagttcacagccctctcaggctc 260

                                                                      
Query: 361 cctgcatcccccttagcctccaatgtcccccttaagtctgtgaagcatccccaccccca 419
           ||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 259 cctgcatcccccttaccctccaatgtcccccttaagtctgtgaagcatccccaccccca 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: 21
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: 420
Length of database: 820
Length adjustment: 9
Effective length of query: 411
Effective length of database: 811
Effective search space:   333321
Effective search space used:   333321
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= MSMg01no365_j07.g1 MSMg01no365_j07.g1 CHROMAT_FILE:
MSMg01no365_j07.g1 PHD_FILE: MSMg01no365_j07.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:02:07 2005
         (478 letters)



>mm_chr6_88806778_88807655
          Length = 878

 Score =  924 bits (478), Expect = 0.0
 Identities = 478/478 (100%)
 Strand = Plus / Plus

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

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

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

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

                                                                       
Query: 241 tgtgcctccaccaccgggcttcaacacagttttaaagagcaaatacccaccagtgcctgc 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 tgtgcctccaccaccgggcttcaacacagttttaaagagcaaatacccaccagtgcctgc 500

                                                                       
Query: 301 ggagtgagttctggctttggtgtgtgatgtaccagctgggggctccctggagcaggagag 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 ggagtgagttctggctttggtgtgtgatgtaccagctgggggctccctggagcaggagag 560

                                                                       
Query: 361 gaggctccacatggccgctcctgggagatcctgcgggctcccgggcagccagcacatgct 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 gaggctccacatggccgctcctgggagatcctgcgggctcccgggcagccagcacatgct 620

                                                                     
Query: 421 ctgtgaaccctgctctcctcaaatggcttgctcctccgcccctttctatttctgtctt 478
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 ctgtgaaccctgctctcctcaaatggcttgctcctccgcccctttctatttctgtctt 678


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: 23
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: 478
Length of database: 878
Length adjustment: 10
Effective length of query: 468
Effective length of database: 868
Effective search space:   406224
Effective search space used:   406224
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)