BAC Information

Click to search

BAC

Clone NameMSMg01-273H09
Chromosome5 (Build37)
Map Location 48,653,268 - 48,820,819
singlet/doubletdoublet
Overlap geneSlit2, 4933428G09Rik, Kcnip4
Upstream geneLOC100040865, LOC100040876
Downstream geneLOC100041668, LOC100041659
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-273H09.T7 (MSMg01no273_h09.b1)MSMg01-273H09.TJ (MSMg01no273_h09.g1)
ACCAG412454AG412455
length728728
length of high quality
(start - end)
145 (432 - 576)287 (70 - 356)
definitionCHROMAT_FILE: MSMg01no273_h09.b1 PHD_FILE: MSMg01no273_h09.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:12:50 2005CHROMAT_FILE: MSMg01no273_h09.g1 PHD_FILE: MSMg01no273_h09.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:12:50 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(48,820,675 - 48,820,819)(48,653,268 - 48,653,554)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTC
ATGGGTTTCTCAGGTAATGTGATAAAATTATCCAATGGATATTTTTTTGG
CTTTCATAGTTACTATTCCCGTTTATGAAAAAACTCAGTTAAATTTAAAT
TTCTGTTCTCCAACTCCACTTCAAATCTCAGGCCCCTGATTAAACCTCTG
TCTGACAATGGCAAAGTTCCTTAACCTAACCTGAGCTCATTTGTTGCAAA
CCATGTGGGAAAATATCTGCCTCCTATACCTGTTATGAGGATTTAATGAG
AACACGTTATCTTCTCCATCTGCCTGGCCCAGTGCCCAGCAAACCATGGG
CAATCATTATTAGTTAGCTCTCCTCCTCTGCCCCAGCCCCTACCCTTCCT
CAAGACTTCTTTGGTTATACTTCAGGTGTTTCAAACTCTGAATCTACCCA
AAACAATTCAACTGTTTCTATCCATCTATTTGATAATCACTGATGGAAAA
ACCATTACCAAACTTATTTCATAACATGAACTCATTTTTTGTCTTCATAT
TCTGTTATGTGATGCAATAAAATTGCAAGAAGATTATAGCTTCGGTTAAG
ATGATTTTTTTTAAACCAGAAGTGTAGAATCATTCAATACCATTGTCATA
TCCAGTGAGGAATGTGCCTAAGCTCATATTAAAAGTTCATTCAAGACCGG
TCTAATGAATTCCGGAAGTATCTAGCGG
ACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXATAAATCATCTCTTAACTGTAGACTTTTGTG
CACATTTGAAGTGAGTGCACTTACAAAATGTCAAACTAGCGTCTGCAGAT
TCTGAGGTTGGAGGCACATAGGTGACCTTTGCTGACAGGGAAGCATAAGT
CTGATTCTAGAATTCTGTGTCCTGTTTAATCCCCATCTGCAGTTATAGAG
GAATTATCTTATAATGGGACTTTGTTGTTTCAAATTTAACATGGAATCTG
ATTAATGAGCATGAGTTCTTAGAACAGAAACCCAGCTAAAGTCACAAAAT
ATAATAATGTTTTTTTTGCCCCCCCACCCTCTAAGCTGTCTGTTGCTTTT
TTTCCTTTGATTTTTTTCTTTAACCTGCATACCATGAGAACATGAATCAT
CATGGTAACCATACTTCCGTTTAACATCTCTATCGAGACGTACGGTTGTC
AATGGAGAAAATTCAGAGACCTGAAGAGAATCAGACAAAGAAATCAGCAC
ATAACTAGAAATCTGAGCTAGAAATACTTAAAACAGAATGAGTGCTTCGA
ATACATTCAGAAGTTATAGTGGCATAGTTAAACCCTGAGCAAGCAAACAT
CACATAGAGTGAATGATGTATTCCCTGTTTCCTTTCTGGTAACAAAACAA
AGGACTGATAACATAAGCTGTATGACTC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no273_h09.b1 MSMg01no273_h09.b1 CHROMAT_FILE:
MSMg01no273_h09.b1 PHD_FILE: MSMg01no273_h09.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:12:50 2005
         (145 letters)



>mm_chr5_48820475_48821019
          Length = 545

 Score =  273 bits (141), Expect = 4e-78
 Identities = 144/145 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   caaactctgaatctacccaaaacaattcaactgtttctatccatctatttgataatcact 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 345 caaactctgaatctacccaaaacaattcaactgtttctatccatctatttgataatcact 286

                                                                       
Query: 61  gatggaaaaaccattaccaaacttatttcataacatgaactcattttttgtcttcatatt 120
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 285 gatggaaaaaccattaccaaacttatttcaaaacatgaactcattttttgtcttcatatt 226

                                    
Query: 121 ctgttatgtgatgcaataaaattgc 145
           |||||||||||||||||||||||||
Sbjct: 225 ctgttatgtgatgcaataaaattgc 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: 6
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: 145
Length of database: 545
Length adjustment: 8
Effective length of query: 137
Effective length of database: 537
Effective search space:    73569
Effective search space used:    73569
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= MSMg01no273_h09.g1 MSMg01no273_h09.g1 CHROMAT_FILE:
MSMg01no273_h09.g1 PHD_FILE: MSMg01no273_h09.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:12:50 2005
         (287 letters)



>mm_chr5_48653068_48653754
          Length = 687

 Score =  524 bits (271), Expect = e-153
 Identities = 283/287 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   ataaatcatctcttaactgtagacttttgtgcacatttgaagtgagtgcacttacaaaat 60
           |||||||||||||||||||||||||||||||||||||||||||||||| | |||||||||
Sbjct: 201 ataaatcatctcttaactgtagacttttgtgcacatttgaagtgagtgtagttacaaaat 260

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

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

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

                                                          
Query: 241 catgagttcttagaacagaaacccagctaaagtcacaaaatataata 287
           |||||||||  ||||||||||||||||||||||||||||||||||||
Sbjct: 441 catgagttcagagaacagaaacccagctaaagtcacaaaatataata 487


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: 16
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: 287
Length of database: 687
Length adjustment: 9
Effective length of query: 278
Effective length of database: 678
Effective search space:   188484
Effective search space used:   188484
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)