BAC Information

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BAC

Clone NameMSMg01-302K24
Chromosome18 (Build37)
Map Location 38,428,344 - 38,428,659
singlet/doubletsinglet
Overlap genePcdh12
Upstream genePcdhb2, 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, Diap1, Hdac3, 4631403P03Rik, Fchsd1, Centd3, Pcdh1, LOC100042583, 1700086O06Rik, 0610009O20Rik
Downstream geneRnf14, 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 nameMSMg01-302K24.T7 (MSMg01no302_k24.b1)MSMg01-302K24.TJ (MSMg01no302_k24.g1)
ACCAG428507AG428508
length725725
length of high quality
(start - end)
323 (46 - 368)79 (141 - 219)
definitionCHROMAT_FILE: MSMg01no302_k24.b1 PHD_FILE: MSMg01no302_k24.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:40:23 2005CHROMAT_FILE: MSMg01no302_k24.g1 PHD_FILE: MSMg01no302_k24.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:40:23 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
ATCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCCACAAATTTTAAAAACCAGCTTATTCCCTGAGATCCTCAAGACCC
GAGTGCCCTAACATTTCCCATTGGACCCAGGTCCTGGATCCAAACACATC
CCAACCAAACATGTTCATAGATTCCTGCCACAGCCAAGTCTGCTCTCAGC
TGCCTTCTTTCTACCCTGTGCTTCTGAAGCTGAGGCCCCACTGGTGGCTA
GGTCTAGACTGAGGGTCCTCCCGCACACCGAGAGCCTCCGCAAAGCCGCG
GACGCAGCTTCCACTGGTACCGTGTGCTGCCCCAATAACATTTCCAGCAG
AGAGCTCATCTCCGATTTTTATTTGCCCCCCACCCGCGTGCCTGTTGGGC
TCAGCTCGGGTCCCGGTCCAACTGTCTTGAAAAATAAATGGAAGGTTCTC
GGTTCCTCTGACGTTGTAGCATCGGGGGAAGACAAGTTGTCTCGGTAATT
GGTGGTGAGGGGCAATGACAATCTCGCCATCCAGGCTGGGTCAGGCAGAC
TCAGCTTGTCCAGNGCTAGACCTGCAGAGGAAGGAGGGACACGGTGAGGG
CCAGATGCACAGAAGGGCAGGGAAGCCAGGCAGGGTGGGGCTGGAAGCAG
AACAAGAGAGGTGGACAAAGAAGGAAAGGGAAATGGTGGGGGACACACTA
CCGTGAGAGAGGGACGGGAAGGAAA
CGATGCAGTGTGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXTCAAAAAAGTAGGAGTGTATAT
ACTGGTGCGTACATATTTTCCCACCAAAAAAAGAGGAAAAATCCCATCGT
TTCCTATCCTCAGCTGGTCAGTATCATCAAAATCATCCCGGCCCACAAAA
TCTTCATCCTAATTGAAAGAAAAAGAGTAGGGCAAAGTCATAATGAGTTA
TTTCTAGACAAATGACATCAGGAAAAATACAAGGAACAAATACTAGAATC
TAGAAGTGCATTTATTACTGGTTCTTTTTATAACTATAACTGTTATCACT
CAGCAACACATTTTANGTGGGTTCTNAAACAAAAACCCCGGAAAGAGTTG
TAAAGGAAGAAGGGGAGGGCGNGCCAAAAANNNCAAACCAAAAGGGGGCC
NCGCCCGGGGGCCCCCNCCACCGCNGGCCAAGACCACCAGAAAGACCGCG
AGAAGGCGCCGCAAACCCCGGAAAAGGACCCAACAGAAACAAGGGAGCAC
CAAGAGGGAGGGGGGAAAAGGAACCAGGGAAAAAAAGCCAGGAGCGCCAA
CGCCAAAGGCAACAAGAGAGGCCCCGCAAGCGCAAGAAAAGGCAAGCACA
AGACCCAAACAAGCACCGAAGCCCAACAGACAAAGAAGCACCAAAAGCGA
CGCGCAGGCAAAGGAAAAAGCACAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no302_k24.b1 MSMg01no302_k24.b1 CHROMAT_FILE:
MSMg01no302_k24.b1 PHD_FILE: MSMg01no302_k24.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:40:23 2005
         (323 letters)



>mm_chr18_38428140_38428862
          Length = 723

 Score =  588 bits (304), Expect = e-172
 Identities = 313/316 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattccacaaattttaaaaaccagcttattccctgagatcctcaagacccgagtgccct 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattccacaaattttaaaaaccagcttattccctgagatcctcaagacccgagtgccct 264

                                                                       
Query: 65  aacatttcccattggacccaggtcctggatccaaacacatcccaaccaaacatgttcata 124
           |||||||||||  |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 aacatttcccaggggacccaggtcctggatccaaacacatcccaaccaaacatgttcata 324

                                                                       
Query: 125 gattcctgccacagccaagtctgctctcagctgccttctttctaccctgtgcttctgaag 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 gattcctgccacagccaagtctgctctcagctgccttctttctaccctgtgcttctgaag 384

                                                                       
Query: 185 ctgaggccccactggtggctaggtctagactgagggtcctcccgcacaccgagagcctcc 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 ctgaggccccactggtggctaggtctagactgagggtcctcccgcacaccgagagcctcc 444

                                                                       
Query: 245 gcaaagccgcggacgcagcttccactggtaccgtgtgctgccccaataacatttccagca 304
           |||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 445 gcaaagccgcggacgcagcttccactggtaccgtgtgctgccccaacaacatttccagca 504

                           
Query: 305 gagagctcatctccga 320
           ||||||||||||||||
Sbjct: 505 gagagctcatctccga 520


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: 13
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: 323
Length of database: 723
Length adjustment: 9
Effective length of query: 314
Effective length of database: 714
Effective search space:   224196
Effective search space used:   224196
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)