BAC Information

Click to search

BAC

Clone NameMSMg01-391M17
Chromosome18 (Build37)
Map Location 38,948,482 - 39,155,295
singlet/doubletdoublet
Overlap geneFgf1, EG545253, Arhgap26
Upstream genePcdhg@, 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, Pcdh12, Rnf14, Gnpda1, LOC240219, LOC100041839, Ndfip1, Spry4, 9630014M24Rik, LOC100041865, LOC100041875, LOC100042671, LOC666809, LOC100041894
Downstream geneNr3c1, Pabpc2, LOC100041939
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-391M17.T7 (MSMg01no391_m17.b1)MSMg01-391M17.TJ (MSMg01no391_m17.g1)
ACCAG493482AG493483
length771778
length of high quality
(start - end)
245 (62 - 306)240 (71 - 310)
definitionCHROMAT_FILE: MSMg01no391_m17.b1 PHD_FILE: MSMg01no391_m17.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:36:07 2005CHROMAT_FILE: MSMg01no391_m17.g1 PHD_FILE: MSMg01no391_m17.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:36:07 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(39,155,054 - 39,155,295)(38,948,482 - 38,948,721)
sequence
GCGGCGCTAAACGACTCCTATATTCCACACATCCGCGGAATTCATGCTCT
TCCAAACAGTGGATGGCAAATTGCCAGTCACCCAAAATGCCTTCCTCAGA
TTCAATGCTCAGATACAAAAATGCAAGTCCAAATTCTAGTAGGTTTGGTC
CTATAGGCTCCATTCTGGGCACAAAGGGACCACGCAAAATCCACAACCCC
AGGCCAGTGGATGAAGCTATGGGACTCTGGGCTAGTGATTCCCCAAGTGT
GAGGTTAACACACAAATAATGCCATGCCTGCCACAGAGTACTGTGCCTCC
ACACCCACTGTGTCAGCCAAATGTCATTGCTACATCCTAGCATCTAGCGC
AATGCCCAGGAAGTGCAGGCACTTCATATGTTTGCTGAGTGAGGCAGAAG
ATCACCTAAGGCTAGCCTGGGGTCAGCCATGCCCAGATGGTGCATGCCTT
CAATCATAGCACTCTTAGGAGGCTGAGGCAGGAAGGGCACTGCTCCAGGT
AAGCATAGGGAAACCCTGTTTCAATGAACAGGAGGTGCACAGAGGCCAAA
GGTTTCCTCCCTCTCCTCTTTCTTCCCTCTCCCTCTCCCTCTCTCCCTCC
CTTTCTATCTCCCCCCCTCTTACCTCCCCTCCCCTCCGTCCCCTCTTTTT
CCTTTCCCGCTCTTCTCCCTACACCGGCCTCCCTCCCATTTCCTCCCCCC
TTCCCTTTTCAGCCCACCCCTTTTTCCTCACCCCCCCCTAATCCCCCCAC
CCCTATTCACGCCCTTACTTC
GATGAAGTGGGAGGCCTGGNGGNCGCCCGGTTTCACACCTAGGTGAACTA
TAGAAGTTTCCGCAAACATCCTGCCTATTCTGAGCAGATTGTCCCCAAAT
TTGTCATTAAAAGTGCAATTTCCTCTATGCAAACTATCTTTTCAAGGACC
CCAGGAAAGATGATGAGAACAGGAAATGGGGTTTCCAATTATTCATGTCA
GTAATGAACTTGATTCGGTATTCATTTCTGTATGGATTCTGCGTTCTTTT
CACTCTTGTTCGGTAATAAAGTTAGCTATTCCTTTTAATTCTTTCATTTG
TGCATTTGAGGATTAGATCNCTCTTGATTGCCCACTATGTGCAGACACTG
TGCTGTCTCCATCCATGTGGTAAAAAGCCCTGGCTACTGCCCTGGATGCT
TCTGTTCCACCCCCCCATATTCGCACGAAGTATCTAATTACCCACCAGAG
CTGCACAATTGTCGGCCCACTGTGCTCCGTCGACATTCCCAGGATCATAT
GTGAACAGCTCTTGCCACGCCCTGCCCGTGTTCTGGCCTTAACACCTGTA
TCCCCGTCCCCTGTCACTGATTGCTGCCCTACCTTTTTTCCTACCTTCTT
CCATTTCCCCCCTACAAGTCCTACTTTCCCCCTCCCCTCCCCTTCTTTCT
TTCTTCCCTCCCCCCCCCTCCTATTTCCCTCCATCCTTCCCCCTCCCCCC
CCCCCCCTCCTTTTCCCTCTTCCTCTTCCTTCTTTTCCCCCCCTCTTTCT
TTCTTCCCCTCCCTTTCCCCCTTCTTTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no391_m17.b1 MSMg01no391_m17.b1 CHROMAT_FILE:
MSMg01no391_m17.b1 PHD_FILE: MSMg01no391_m17.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:36:07 2005
         (245 letters)



>mm_chr18_39154851_39155495
          Length = 645

 Score =  460 bits (238), Expect = e-134
 Identities = 241/242 (99%)
 Strand = Plus / Minus

                                                                       
Query: 4   ggcaaattgccagtcacccaaaatgccttcctcagattcaatgctcagatacaaaaatgc 63
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 445 ggcaaattgccagtcacccaaaatgccttcctcagattcaatgctcagatacaaaaatgc 386

                                                                       
Query: 64  aagtccaaattctagtaggtttggtcctataggctccattctgggcacaaagggaccacg 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 aagtccaaattctagtaggtttggtcctataggctccattctgggcacaaagggaccacg 326

                                                                       
Query: 124 caaaatccacaaccccaggccagtggatgaagctatgggactctgggctagtgattcccc 183
           |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 caaaatccacaaccacaggccagtggatgaagctatgggactctgggctagtgattcccc 266

                                                                       
Query: 184 aagtgtgaggttaacacacaaataatgccatgcctgccacagagtactgtgcctccacac 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 aagtgtgaggttaacacacaaataatgccatgcctgccacagagtactgtgcctccacac 206

             
Query: 244 cc 245
           ||
Sbjct: 205 cc 204


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: 12
Number of extensions: 2
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: 245
Length of database: 645
Length adjustment: 9
Effective length of query: 236
Effective length of database: 636
Effective search space:   150096
Effective search space used:   150096
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)
Query= MSMg01no391_m17.g1 MSMg01no391_m17.g1 CHROMAT_FILE:
MSMg01no391_m17.g1 PHD_FILE: MSMg01no391_m17.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:36:07 2005
         (240 letters)



>mm_chr18_38948282_38948921
          Length = 640

 Score =  456 bits (236), Expect = e-133
 Identities = 239/240 (99%)
 Strand = Plus / Plus

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

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

                                                                       
Query: 121 attcatgtcagtaatgaacttgattcggtattcatttctgtatggattctgcgttctttt 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 321 attcatgtcagtaatgaacttgattcggtattcatttctgtatggattctgcgttctgtt 380

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


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: 11
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: 240
Length of database: 640
Length adjustment: 9
Effective length of query: 231
Effective length of database: 631
Effective search space:   145761
Effective search space used:   145761
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)