BAC Information

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BAC

Clone NameMSMg01-340J11
Chromosome6 (Build37)
Map Location 89,299,360 - 89,299,882
singlet/doubletsinglet
Overlap genePlxna1
Upstream geneEefsec, Ruvbl1, Sec61a1, 4933428M03Rik, Mgll, Abtb1, Podxl2, LOC100043146, Mcm2, Gpr175, 4933427D06Rik, Gm1965, LOC100043153, LOC100043159, EG624483, EG624491, LOC665547, EG624537, Gm839, 4930512J16Rik
Downstream geneChchd6, Txnrd3, V1r-ps1, V1rb7, V1rb9, V1r-ps2, V1r-ps3, V1ra6, V1ra5, V1rb4, V1r-ps4, V1ra2, V1rb8, V1ra4, V1ra3, V1rb2, V1rb1, V1ra1, LOC625050, V1ra7, V1ra8, V1rb3, LOC100043191, V1r-ps5, V1ra9, BC048671, Chst13, Uroc1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-340J11.T7 (MSMg01no340_j11.b1)MSMg01-340J11.TJ (MSMg01no340_j11.g1)
ACCAG454592AG454593
length730733
length of high quality
(start - end)		588 (48 - 635)522 (76 - 597)
definitionCHROMAT_FILE: MSMg01no340_j11.b1 PHD_FILE: MSMg01no340_j11.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:29:37 2005CHROMAT_FILE: MSMg01no340_j11.g1 PHD_FILE: MSMg01no340_j11.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:29:37 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
NACCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGC
GGAATTCTCACCTGATTGACACCAAATGGCTGAGAAGCACCTGAAAAAAT
GTTCAGCATCCTTAATCATCAGGGAAATGCAAATCAAAACAACCCTGAGA
TTCCACCTCACACCAGTCAGAATGGCTAAGATAAAAAATTCAGGTGACAG
CAGATGCTGGGGAGGATGTGGAGAAAGAGGAACACTCCTCCATTGTTGGT
GGGATTGCAAGCTTGTACAACCACTGTGGAAATCAGTCTGGCGGTTCCTC
AGAAAATTGGACATAGTACTACCGGAGGATCCTGCAATACTTCTCCTGGG
CATATATCCAGAAGATGTTCCAACTGGTAAGAAGGACACATGCTCCACTA
TGTTCATAGCAGCCTTGTTTATAATAGCCAGAAGCTGGAAAGAACCCAGA
TGCCCCTCAACAGAGGAATGGATACAAAAAATGTGGTACATTTACACAAT
GGAGTACTACTCAGCTATTAAAAAGAATGAACTTATGAAATTCCTAGGTA
AATGGATGGACCTGGAGGGCATCATCCTGAGTGAGGTAACCCAATCACAA
AAGAACTCACATGATATGTACTCACTGATAAGTGGATATTAGCCCAGAAA
CTTAGAATACCCAAGATATAATATACAATTTGCGAAACACATGAAGCTCG
GGAAGAATGAAGACCANGGTGTGGACACTT

CCATTGCTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXAGAGGCTAGCAGTTCTACAGGAGGG
AGCATCTGATTGGAGGTTACTTGGAGACTCTCTGCTATGGCCCCACTGTT
TACCACTCATAGAACATGTTTCCTAGGACAGCCCTGGGCTACACTACTGT
GGCCTCCTCTGCCATGGATGGAACCTAACTGCTCCCAGGGGAAGAGCTGC
CCAGGGTAGGTACTAGGAGTAAAACACATTAAGAGTGACTTCCATGTGCA
TCTGGGTAGCCTGTTGGCCACTAGGAGCTAATATGCTTCAGCCTGGGGCT
AGTAGCTAGATAGCACTGATCAGGTCTGTGTCTTGACTCAGCCCCTGATG
GCAGGTCTCCTTTAGAACCAGCAAGAAGGAAGCAGTGCTCCCAGGAGACA
CAGATGTCTGCTCAGCACTACGAGAGTACATGGGTGCCACAGGGGCACAT
CTACTCCACAGAAGGCAGACAGCCTGGGCCCCTCCATTTCCTACTTACAA
TTAGCAGGGAGAGAAAACAGAAATGGGTCCCACCTAGTGCTTGGAACAAG
ACATTAGTTGAGAAGTTGAATGGNAAGACCAAGATCAAAGCCCTGCAACT
CTTCCCGACACTGTCAGAACCTATGCCCCAAAGGCTAGGTCCTTGGAACA
ATGTTGCATGAAACACTGCATGGCAAGCAAAGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no340_j11.g1 MSMg01no340_j11.g1 CHROMAT_FILE:
MSMg01no340_j11.g1 PHD_FILE: MSMg01no340_j11.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:29:37 2005
         (522 letters)



>mm_chr6_89299160_89300082
          Length = 923

 Score =  973 bits (503), Expect = 0.0
 Identities = 518/523 (99%), Gaps = 1/523 (0%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  tatggccccactgtttaccactcatagaacatgtttcctaggacagccctgggctacact 120
           |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 tatggccccactgtttcccactcatagaacatgtttcctaggacagccctgggctacact 320

                                                                       
Query: 121 actgtggcctcctctgccatggatggaacctaactgctcccaggggaagagctgcccagg 180
           ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 321 actgtggcctcctctgccatggatggaacctaactgctcccagaggaagagctgcccagg 380

                                                                       
Query: 181 gtaggtactaggagtaaaacacattaagagtgacttccatgtgcatctgggtagcctgtt 240
           || |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 gtgggtactaggagtaaaacacattaagagtgacttccatgtgcatctgggtagcctgtt 440

                                                                       
Query: 241 ggccactaggagctaatatgct-tcagcctggggctagtagctagatagcactgatcagg 299
           |||||||||||||||||||||  |||||||||||||||||||||||||||||||||||||
Sbjct: 441 ggccactaggagctaatatgccatcagcctggggctagtagctagatagcactgatcagg 500

                                                                       
Query: 300 tctgtgtcttgactcagcccctgatggcaggtctcctttagaaccagcaagaaggaagca 359
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 tctgtgtcttgactcagcccctgatggcaggtctcctttagaaccagcaagaaggaagca 560

                                                                       
Query: 360 gtgctcccaggagacacagatgtctgctcagcactacgagagtacatgggtgccacaggg 419
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 gtgctcccaggagacacagatgtctgctcagcactacgagagtacatgggtgccacaggg 620

                                                                       
Query: 420 gcacatctactccacagaaggcagacagcctgggcccctccatttcctacttacaattag 479
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 gcacatctactccacagaaggcagacagcctgggcccctccatttcctacttacaattag 680

                                                      
Query: 480 cagggagagaaaacagaaatgggtcccacctagtgcttggaac 522
           |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 cagggagagaaaacagaaatgggtcccacctagtgcttggaac 723


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: 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: 522
Length of database: 923
Length adjustment: 10
Effective length of query: 512
Effective length of database: 913
Effective search space:   467456
Effective search space used:   467456
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)


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