BAC Information

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BAC

Clone NameMSMg01-400K09
Chromosome3 (Build37)
Map Location 30,905,003 - 30,905,475
singlet/doubletsinglet
Overlap genePrkci
Upstream geneMds1, LOC100040727, LOC100040734, LOC100040749, Arpm1, Mynn, Lrrc34, 4930558O21Rik, E230002P03Rik, Samd7, Tloc1, Gpr160, Phc3, LOC100040809
Downstream geneSkil, Cldn11, Slc7a14, LOC625125, Kcnmb2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-400K09.T7 (MSMg01no400_k09.b1)MSMg01-400K09.TJ (MSMg01no400_k09.g1)
ACCAG500221AG500222
length782800
length of high quality
(start - end)
470 (72 - 541)195 (129 - 323)
definitionCHROMAT_FILE: MSMg01no400_k09.b1 PHD_FILE: MSMg01no400_k09.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:14:01 2005CHROMAT_FILE: MSMg01no400_k09.g1 PHD_FILE: MSMg01no400_k09.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:14:02 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
CCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCAGAGAATCCGCGG
AATTCCCATCAATTTCAGTTACATTTCTTCAACCAACTAGAAATTACAAT
CCTGGAATTCATACAGAAACACCCCTCCCCGCCCCCCCGCAATAGCCAAA
GCAGTCCTAGGCAGAGAGAATGACAATAACTGTATCACAGTGTCTGACCT
CTACACACCACAGAGCCACAGCAGCAGACCATAGTTACTGGGACAGAACC
AAGACAGCAGAAATGAGCTCTCACAGCAGTTGCCACCTTAGTCTAACATA
CACTGGGAAAGGATAGCCTCTTCTCCAAGTGGTCCTGGGCCAAAGGCCCA
GGGAACACCACCACAGAAGACAGAAGAGGGAGTGGAAAGACTCAAGTCCA
GAGAACCAGCTCTTTCCTACAAATGACAGGGAAGCTAGACCTCAAATAAT
ATGGCTGACCAACGGAGACCTTAAGGACGCTACCAACATGTTAGCATGGA
AGAGGGAAATCTTACCTGAGCCCACCCAGAACAATGAACTACAGGCAATC
AGGCAATTAAGGCTTGCTGAGAGAGGTAGATGTAGTCTTCCCAAGATGAG
GCTCTAATTGGTTATCCAAAACAAAGCGGTCCAACTGGAAACCTTATACC
TATAATGTACATTGACCAGATTCAGCACATTAACTAACTTATGCCCTTAG
CAATCACTGAATTGCGTGGGGGGGTATTATTTCCCCACAATATATAATTT
TATTTTTCGACAAGCATCTCACAGTTTCGGAG
CATTGXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCAAAAACTGTAGGGN
NGAACTATAGAAGGTTCCCAAAAACTCTATTATGCTAATAGCAACTCAGG
AGTGACTTGAGTAGCCACTGATTACCCGAGAGAGAAAAGGCAGTGATAGG
ATATCAGGTTCTTTTCCTAAGGCTTGCAGGGCTCTCTCTCTGCCATTTCA
AATCGTAATAGCGAACTCATCAACCAGAATTCTAGGTGCTTGGCCCACTG
GGGTGTTTTGCTACACCAGTGCTCTCTGGGGGCTGATACAGTATCCTCAC
AAGAGTAGGGGAGGAGTTAAATTGAATCCATCCCGGCATTGTTGGATCAT
ACCTAGGAGTGCCATCTTTTACGCCTGTGTTGATGGTGCCCGTAAACCTC
AAATGCCTCAGAAGAGAGACATTACAGGGAGGAGGGGATTTTATTACCCT
TTGGGAGATCAAAGAAAGGTTGTAGGATACTGTGGGGAGGGAATGCCACA
GACAAGCCAGTTAAAGTTTCCCAAAAAGCTAAGGAGGGAGGCAAGATATA
AGATCTGAGGTAAGCCATTATAAAGTGTAGTACAGAGGCTAACAAAGATT
TCTCAACTGAGGAATACCCAAGGGCTTATAAGCACCTTGAAAAAAGTTTA
AACATCCTCAACCTTCTTTTTTTTTGTAAATCACAAACAACCCCGAAATT
CCAACCTTACACCCTGTCATTAATGTGCCCTAATATTAACATTCTGTTGC
ACATCATATGCGGGGCCAGGGATGCCTTAACTATAAAGGCCACACCCTCG

quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no400_k09.b1 MSMg01no400_k09.b1 CHROMAT_FILE:
MSMg01no400_k09.b1 PHD_FILE: MSMg01no400_k09.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:14:01 2005
         (470 letters)



>mm_chr3_30904803_30905675
          Length = 873

 Score =  841 bits (435), Expect = 0.0
 Identities = 463/475 (97%), Gaps = 7/475 (1%)
 Strand = Plus / Minus

                                                                       
Query: 1   catttcttcaaccaactagaaattacaatcctggaattcatacagaaacacccctccccg 60
           |||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 673 catttc-tcaaccaactagaaattacaatcctggaattcatacagaaacacccctccccg 615

                                                                       
Query: 61  cccccccgcaatagccaaagcagtcctaggcagagagaatgacaataactgtatcacagt 120
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 614 -ccccccgcaatagccaaagcagtcctaggcagagagaatgacaataactgtatcacagt 556

                                                                       
Query: 121 gtctgacct-----ctacacaccacagagccacagcagcagaccatagttactgggacag 175
           |||||||||     ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 555 gtctgacctctacactacacaccacagagccacagcagcagaccatagttactgggacag 496

                                                                       
Query: 176 aaccaagacagcagaaatgagctctcacagcagttgccaccttagtctaacatacactgg 235
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 495 aaccaagacagcagaaatgagctctcacagcagttgccaccttagtctaacatacactgg 436

                                                                       
Query: 236 gaaaggatagcctcttctccaagtggtcctgggccaaaggcccagggaacaccaccacag 295
           ||||||||||||||||| |||||||||||| |||||||||||||||||||||||||||||
Sbjct: 435 gaaaggatagcctcttcaccaagtggtcctaggccaaaggcccagggaacaccaccacag 376

                                                                       
Query: 296 aagacagaagagggagtggaaagactcaagtccagagaaccagctctttcctacaaatga 355
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 375 aagacagaagagggattggaaagactcaagtccagagaaccagctctttcctacaaatga 316

                                                                       
Query: 356 cagggaagctagacctcaaataatatggctgaccaacggagaccttaaggacgctaccaa 415
           ||| ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 315 cagagaagctaaacctcaaataatatggctgaccaacggagaccttaaggacgctaccaa 256

                                                                  
Query: 416 catgttagcatggaagagggaaatcttacctgagcccacccagaacaatgaacta 470
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 255 catgttagcatggaagagggaaatcttacctgagcccacccagaacaatgaacta 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: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 470
Length of database: 873
Length adjustment: 10
Effective length of query: 460
Effective length of database: 863
Effective search space:   396980
Effective search space used:   396980
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)