BAC Information

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BAC

Clone NameMSMg01-076I02
Chromosome18 (Build37)
Map Location 38,046,259 - 38,197,636
singlet/doubletdoublet
Overlap geneDiap1, Hdac3, 4631403P03Rik, Fchsd1, Centd3
Upstream geneEG627427, Pcdha1, Pcdha@, Pcdha2, Pcdha3, Pcdha4, Pcdha5, Pcdha6, Pcdha7, Pcdha8, Pcdha9, Pcdha10, Pcdha11, Pcdha12, Pcdhac1, Pcdhac2, Pcdhb1, Pcdhb2, Pcdhb3, Pcdhb4, Pcdhb5, Pcdhb6, Pcdhb7, Pcdhb8, Pcdhb9, Pcdhb10, Pcdhb11, Pcdhb12, Pcdhb13, Pcdhb14, Pcdhb15, Pcdhb16, Pcdhb17, Pcdhb18, Pcdhb19, Pcdhb20, Pcdhb21, Pcdhb22, Slc25a2, Taf7, EG666693, Pcdhg@, Pcdhga1, Pcdhga2, Pcdhga3, Pcdhgb1, Pcdhga4, Pcdhgb2, Pcdhga5, Pcdhga6, Pcdhga7, Pcdhgb4, Pcdhga8, Pcdhgb5, Pcdhga9, Pcdhgb6, Pcdhga10, Pcdhgb7, Pcdhga11, Pcdhgb8, Pcdhga12, Pcdhgc3, Pcdhgc4, Pcdhgc5
Downstream genePcdh1, LOC100042583, 1700086O06Rik, 0610009O20Rik, Pcdh12, Rnf14, Gnpda1, LOC240219, LOC100041839, Ndfip1, Spry4, 9630014M24Rik, LOC100041865, LOC100041875, LOC100042671, LOC666809, LOC100041894, Fgf1, EG545253, Arhgap26
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-076I02.T7 (MSMg01no076_i02.b1)MSMg01-076I02.TJ (MSMg01no076_i02.g1)
ACCAG299066AG299067
length692690
length of high quality
(start - end)		642 (51 - 692)618 (73 - 690)
definitionCHROMAT_FILE: MSMg01no076_i02.b1 PHD_FILE: MSMg01no076_i02.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:25:30 2005CHROMAT_FILE: MSMg01no076_i02.g1 PHD_FILE: MSMg01no076_i02.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:25:30 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(38,196,999 - 38,197,636)(38,046,259 - 38,046,876)
sequence
GCCTTTCTCTATAAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
CGCGGAATTCTTGCCAGGGGCCACAGGGGACATGGCATGTGAGGGGGCTG
CTCTGGGGCCAGTCCCGTCAAGCCCACTGCCGCTCGTTCAGGAACCACCA
GCTGTCTGTCAATTAAGGAGTTTCAGTGTAAGAGGCTCACCTCTCTCATG
TGATGATATGTGTCACATCCGGGAACGATCAAAACAGCTCAGCATCGGCA
AAGCGTCTCCGGCTTCGTATTTGTGCTTTGGTGTCTAAGTGTAACTCTCT
GTTCCCAAGACACCTGTGATTTGCTGGTCTCTGACAACCATTACCTGCTC
AAAGCCTCTGCCTGCTACCCAGCCCACCTGGTAGCACCCTGCTCCTTGCA
CATCTGTTCATATAGTAGTTAATTTTACCTCCGGACAAAGGGCAGATTAG
ACTCAGAGTCCAGCTGGAAAAGATGACCAAAGTTTAGAAAGTACTGCTAC
CACTTAGCAATGTCTACTCGATTCACACTACTGTATGCCGGGTGCCTTGA
GTCTCACAGTGCAACCAAGTTCACACAGTTGATAAGTGTTTCTGAAGGCT
AACATTTGAATTCAGATCTCTGCCATTACAATCTGGACACTTGCTCCCAG
ACTAGGCTGCCTCTCTCTAGCTCACTGATTTCCTACCTTGCT

AATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXTGTAGATCCTCAATATATGTCAGAGTAT
AAGAAAGGATATTTACAGGCTCATTTCTACACCACAGGTGAGAGAGGCAA
CAACAAAAGATACATGTAGTACACTATCCAGTATAAACTGGATCCCTTAA
GACCCAAGTAACAGGTAGATTTTTGGTTTTAGATCACAAGGAACTTCCCA
AATGCTTTGTGCCAACAATCTTGCCCTACTCAAAATTCATGGCAAACTAG
TAAAGAAAAGCTAACAACCCCAAGTAGGTGTGTGTACAGTACTCTGCTTC
TAATATACATTTTTAAATGGACAGAACAGACATCTCCCTGCCAAGAGACT
CATGACCAGGGAAAGTAGGGTGAGCACTTACAATCTTCTTTCTAGAGGTT
TAAATGGCAGAAGCTATGAAATTCCCTAACATTGCTGGGCATAGTGCTCG
GCACCTGTAACCCCAGCACTCAGGACCCAGAGGCACAAGTTCCCTGTGAC
GTCTAGGCCAGCCAGTGATAAGACCCTGTCTCAAAAAGTAACAGCAAAAA
ATGTATAAACACTAATAAAGATACAACTGGTGAGTGCCACCTAGTGGGCA
GAAGAGTCACAGGGAAATGTCAAATACCCTCAACTTTTGA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no076_i02.b1 MSMg01no076_i02.b1 CHROMAT_FILE:
MSMg01no076_i02.b1 PHD_FILE: MSMg01no076_i02.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:25:30 2005
         (642 letters)



>mm_chr18_38196923_38197964
          Length = 1042

 Score = 1164 bits (602), Expect = 0.0
 Identities = 629/638 (98%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcttgccaggggccacaggggacatggcatgtgagggggctgctctggggccagtc 64
           ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 714 gaattcttgccaggggccacaggggacatggtatgtgagggggctgctctggggccagtc 655

                                                                       
Query: 65  ccgtcaagcccactgccgctcgttcaggaaccaccagctgtctgtcaattaaggagtttc 124
           |||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 654 ccgtcaagtccactgccgctcgttcaggaaccaccagctgtctgtcaattaaggagtttc 595

                                                                       
Query: 125 agtgtaagaggctcacctctctcatgtgatgatatgtgtcacatccgggaacgatcaaaa 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 594 agtgtaagaggctcacctctctcatgtgatgatatgtgtcacatccgggaacgatcaaaa 535

                                                                       
Query: 185 cagctcagcatcggcaaagcgtctccggcttcgtatttgtgctttggtgtctaagtgtaa 244
           ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct: 534 cagctcagcatcggcaaagcgtctcgggcttcgtatttgtgctttggtgtctaagtgtaa 475

                                                                       
Query: 245 ctctctgttcccaagacacctgtgatttgctggtctctgacaaccattacctgctcaaag 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 474 ctctctgttcccaagacacctgtgatttgctggtctctgacaaccattacctgctcaaag 415

                                                                       
Query: 305 cctctgcctgctacccagcccacctggtagcaccctgctccttgcacatctgttcatata 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 414 cctctgcctgctacccagcccacctggtagcaccctgctccttgcacatctgttcatata 355

                                                                       
Query: 365 gtagttaattttacctccggacaaagggcagattagactcagagtccagctggaaaagat 424
           ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 354 gtagttaattttacctccggacaaagggcaggttagactcagagtccagctggaaaagat 295

                                                                       
Query: 425 gaccaaagtttagaaagtactgctaccacttagcaatgtctactcgattcacactactgt 484
           ||| || ||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 294 gactaaggtttagaaagtactgctaccacttagcaatgtctactcgatccacactactgt 235

                                                                       
Query: 485 atgccgggtgccttgagtctcacagtgcaaccaagttcacacagttgataagtgtttctg 544
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 234 atgccgggtgccttgagtctcacagtgcaaccaagttcacacagttgataagtgtttctg 175

                                                                       
Query: 545 aaggctaacatttgaattcagatctctgccattacaatctggacacttgctcccagacta 604
           |||||||| ||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 174 aaggctaagatttgaattcagatctctgccgttacaatctggacacttgctcccagacta 115

                                                 
Query: 605 ggctgcctctctctagctcactgatttcctaccttgct 642
           ||||||||||||||||||||||||||||||||||||||
Sbjct: 114 ggctgcctctctctagctcactgatttcctaccttgct 77


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: 29
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: 642
Length of database: 1042
Length adjustment: 10
Effective length of query: 632
Effective length of database: 1032
Effective search space:   652224
Effective search space used:   652224
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= MSMg01no076_i02.g1 MSMg01no076_i02.g1 CHROMAT_FILE:
MSMg01no076_i02.g1 PHD_FILE: MSMg01no076_i02.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:25:30 2005
         (618 letters)



>mm_chr18_38046059_38047076
          Length = 1018

 Score = 1187 bits (614), Expect = 0.0
 Identities = 617/618 (99%)
 Strand = Plus / Plus

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

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

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

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

                                                                       
Query: 241 aacaaccccaagtaggtgtgtgtacagtactctgcttctaatatacatttttaaatggac 300
           ||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 441 aacaaccccaagtaggtgtgtgtacagtactctgcttctaatatacacttttaaatggac 500

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

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

                                                                       
Query: 421 agtgctcggcacctgtaaccccagcactcaggacccagaggcacaagttccctgtgacgt 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 agtgctcggcacctgtaaccccagcactcaggacccagaggcacaagttccctgtgacgt 680

                                                                       
Query: 481 ctaggccagccagtgataagaccctgtctcaaaaagtaacagcaaaaaatgtataaacac 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 ctaggccagccagtgataagaccctgtctcaaaaagtaacagcaaaaaatgtataaacac 740

                                                                       
Query: 541 taataaagatacaactggtgagtgccacctagtgggcagaagagtcacagggaaatgtca 600
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 741 taataaagatacaactggtgagtgccacctagtgggcagaagagtcacagggaaatgtca 800

                             
Query: 601 aataccctcaacttttga 618
           ||||||||||||||||||
Sbjct: 801 aataccctcaacttttga 818


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: 31
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: 618
Length of database: 1018
Length adjustment: 10
Effective length of query: 608
Effective length of database: 1008
Effective search space:   612864
Effective search space used:   612864
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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