BAC Information

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BAC

Clone NameMSMg01-523M05
Chromosome18 (Build37)
Map Location 20,188,074 - 20,363,171
singlet/doubletdoublet
Overlap geneDsc2, Dsc1
Upstream geneLOC665624, LOC665629, Dsc3
Downstream geneDsg1c, Dsg1a, Dsg1b, Dsg4, LOC435558, Dsg3, Tpi-rs10, Dsg2, Ttr, LOC100040823, B4galt6, D030074E01Rik, Rnf125, Rnf138, Mep1b, EG622978, Gm944
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-523M05.T7 (MSMg01no523_m05.b1)MSMg01-523M05.TJ (MSMg01no523_m05.g1)
ACCAG594002AG594003
length737745
length of high quality
(start - end)
561 (51 - 611)571 (80 - 650)
definitionCHROMAT_FILE: MSMg01no523_m05.b1 PHD_FILE: MSMg01no523_m05.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:57:47 2005CHROMAT_FILE: MSMg01no523_m05.g1 PHD_FILE: MSMg01no523_m05.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:57:47 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(20,362,630 - 20,363,171)(20,188,074 - 20,188,644)
sequence
GTAACTTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
CGCGGAATTCTGTATTTATACTCCTTTCTTCTTGGCTGTACAACCCACTA
GGCAGATCATAAGTCATCTTTGATTTATCTTCCGATGGGTATTGGAAACA
CCTTTGTTTCCTAGTGGTCCTCCTGGCCTTGAATAATAGACCTACTTCCT
ATTGTTAGGAATCTCTTTAGTCTTATGGTCTTCTGATGGACATCTGAGCA
ACTCTATTTTTTGAATAACCATCTTCCTACTTAAGCTTACTTTGAGGACT
AATTCATTTTTACTTCCAGCTTTATTTTAACTTAAGTTTTAAATATAAAA
TTCAAGTAAAAAAATTGAAGTAATGTGTTTTTGTTATTATGTGTCAGAGA
CGATACAGTGAGAAAGCTAGCTTCTTACAATCTCCCATCCTGAGGGGCCA
AACGGCCTTGTGCTAAGAGCCAGTTGTCACTCCCTCCTCTCTGTTCCCTT
CCTGGCACCCGAGGCTGTAAGAGCTGAATTATAGTCCCCTCTTCCCTATC
TTTTCCTGACTTTCATGACTTCCAAGGGCATGAGTTACACGCTGAATCCG
GCATGACACCTCAAGGCTGTTAAGGAGGATCTATGTTCCAGAGATCAGAT
GCAGAATGTCTCTCGTCTGGAGCCTGACCTCGGTCCTCATGTCAGCAGAT
GCCCACTTCTTTGTTCCTTGGTAAATTTACCCCTCGA
NCTCAATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXACTCATCATTGACAGCAGTCA
GATGGAGCCATCTTCTCCCTTCTTGATACCAGGCAGGGACCTAGACCTAG
ACCATTTAAATGGCACCTCAAAGTGTGTACATAGTAAGGGTAGTTTAGCA
ATGTGATGTGCATCAGGAAATCCACTCTGGAGTCTGTGAGTTGTAGACTG
CCATGTTAACTAAAGGGAACTACAACATTGAAGCAATCCATTGCTTATGC
CTGGCAGGGCACAGGTAAGAGCAAATCTGAAGAAGGGACTTCTAGATATA
CATGTAATTCAGAGGGCTTCAGAATAGTCATAAAAAAAGATGTTCTACTT
CCCATCTGCTGTAACCTGGTCTGTCCATAGTGTAACAAACTTGGCAGTCC
TCTGCAGATGTTTCCACAACCTTTGGGAAATGTGTGAACAACTGCACATA
TTAGATTCAGTCATCAGCTGATCACTAGGAAGGGACACAGCCTCAAATAG
CAAAAGACAACTCANAATAGTTTCCATTGTGCCATTTTCTTAATTTATTA
TTATTGGCACTAAAGGGGCTGTATGCATGGTATATTTAAAATCATTATTA
ATAGTGGTAACTTTCAGTAGAACATTTTGTATGACTTTCAGTCTTAACCC
TGCCTCTCTTCTTAAGATCTCATCTATGGAAACTACATAAACTGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no523_m05.b1 MSMg01no523_m05.b1 CHROMAT_FILE:
MSMg01no523_m05.b1 PHD_FILE: MSMg01no523_m05.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:57:47 2005
         (561 letters)



>mm_chr18_20362630_20363590
          Length = 961

 Score = 1009 bits (522), Expect = 0.0
 Identities = 537/542 (99%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattctgtatttatactcctttcttcttggctgtacaacccactaggcagatcataagt 64
           ||||||||||   |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 542 gaattctgtaggaatactcctttcttcttggctgtacaacccactaggcagatcataagt 483

                                                                       
Query: 65  catctttgatttatcttccgatgggtattggaaacacctttgtttcctagtggtcctcct 124
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 482 catctttgatttatcttccaatgggtattggaaacacctttgtttcctagtggtcctcct 423

                                                                       
Query: 125 ggccttgaataatagacctacttcctattgttaggaatctctttagtcttatggtcttct 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 422 ggccttgaataatagacctacttcctattgttaggaatctctttagtcttatggtcttct 363

                                                                       
Query: 185 gatggacatctgagcaactctattttttgaataaccatcttcctacttaagcttactttg 244
           ||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 362 gatggacatctgagcaactctattttttgaataaccatcttcctagttaagcttactttg 303

                                                                       
Query: 245 aggactaattcatttttacttccagctttattttaacttaagttttaaatataaaattca 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 302 aggactaattcatttttacttccagctttattttaacttaagttttaaatataaaattca 243

                                                                       
Query: 305 agtaaaaaaattgaagtaatgtgtttttgttattatgtgtcagagacgatacagtgagaa 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 242 agtaaaaaaattgaagtaatgtgtttttgttattatgtgtcagagacgatacagtgagaa 183

                                                                       
Query: 365 agctagcttcttacaatctcccatcctgaggggccaaacggccttgtgctaagagccagt 424
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 182 agctagcttcttacaatctcccatcctgaggggccaaacggccttgtgctaagagccagt 123

                                                                       
Query: 425 tgtcactccctcctctctgttcccttcctggcacccgaggctgtaagagctgaattatag 484
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 122 tgtcactccctcctctctgttcccttcctggcacccgaggctgtaagagctgaattatag 63

                                                                       
Query: 485 tcccctcttccctatcttttcctgactttcatgacttccaagggcatgagttacacgctg 544
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 62  tcccctcttccctatcttttcctgactttcatgacttccaagggcatgagttacacgctg 3

             
Query: 545 aa 546
           ||
Sbjct: 2   aa 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: 26
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: 561
Length of database: 961
Length adjustment: 10
Effective length of query: 551
Effective length of database: 951
Effective search space:   524001
Effective search space used:   524001
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= MSMg01no523_m05.g1 MSMg01no523_m05.g1 CHROMAT_FILE:
MSMg01no523_m05.g1 PHD_FILE: MSMg01no523_m05.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:57:47 2005
         (571 letters)



>mm_chr18_20187874_20188844
          Length = 971

 Score =  967 bits (500), Expect = 0.0
 Identities = 553/571 (96%)
 Strand = Plus / Plus

                                                                       
Query: 1   actcatcattgacagcagtcagatggagccatcttctcccttcttgataccaggcaggga 60
           ||||||||||||||||||||||||||||||||||||||||| || |||||||||||||||
Sbjct: 201 actcatcattgacagcagtcagatggagccatcttctccctcctcgataccaggcaggga 260

                                                                       
Query: 61  cctagacctagaccatttaaatggcacctcaaagtgtgtacatagtaagggtagtttagc 120
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 actagacctagaccatttaaatggcacctcaaagtgtgtacatagtaagggtagtttagc 320

                                                                       
Query: 121 aatgtgatgtgcatcaggaaatccactctggagtctgtgagttgtagactgccatgttaa 180
           |||||||||||||||||||||| | ||||||||||||||||||||| |||||||||||||
Sbjct: 321 aatgtgatgtgcatcaggaaattctctctggagtctgtgagttgtatactgccatgttaa 380

                                                                       
Query: 181 ctaaagggaactacaacattgaagcaatccattgcttatgcctggcagggcacaggtaag 240
           |||||||||| |||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 ctaaagggaaatacaaccttgaagcaatccattgcttatgcctggcagggcacaggtaag 440

                                                                       
Query: 241 agcaaatctgaagaagggacttctagatatacatgtaattcagagggcttcagaatagtc 300
           |||||| |||||||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct: 441 agcaaagctgaagaagggacttctagatacacatgtaattcagagggcttcagaatagtc 500

                                                                       
Query: 301 ataaaaaaagatgttctacttcccatctgctgtaacctggtctgtccatagtgtaacaaa 360
           |||||||||||||||||||||||||||||||||||||||||||||||||||  |||||||
Sbjct: 501 ataaaaaaagatgttctacttcccatctgctgtaacctggtctgtccatagcataacaaa 560

                                                                       
Query: 361 cttggcagtcctctgcagatgtttccacaacctttgggaaatgtgtgaacaactgcacat 420
           ||||||||||| ||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 561 cttggcagtcccctgcagatgttgccacaacctttgggaaatgtgtgaacaactgcacat 620

                                                                       
Query: 421 attagattcagtcatcagctgatcactaggaagggacacagcctcaaatagcaaaagaca 480
           ||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 621 attagattcagtcatcagctgatcactaggaagggacacagcctcaaatggcaaaagaca 680

                                                                       
Query: 481 actcanaatagtttccattgtgccattttcttaatttattattattggcactaaaggggc 540
           ||||| |||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 681 actcaaaatagtttccattgtgccattttcttaattgattattattggcactaaaggggc 740

                                          
Query: 541 tgtatgcatggtatatttaaaatcattatta 571
           |||||| ||||||||||||||||||||||||
Sbjct: 741 tgtatgtatggtatatttaaaatcattatta 771


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: 571
Length of database: 971
Length adjustment: 10
Effective length of query: 561
Effective length of database: 961
Effective search space:   539121
Effective search space used:   539121
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)