BAC Information

Click to search

BAC

Clone NameMSMg01-338P06
Chromosome4 (Build37)
Map Location 42,275,493 - 42,276,019
singlet/doubletsinglet
Overlap genenone
Upstream geneUbap1, Kif24, Nudt2, AI464131, 1110017D15Rik, 1700066J24Rik, 2310028H24Rik, Dnaic1, 2310040A07Rik, LOC100042420, Cntfr, 2810432D09Rik, Dctn3, OTTMUSG00000006683, Oprs1, Galt, Il11ra1, Ccl27, LOC100039789, LOC623085, LOC100042466, LOC100042472, LOC100042493, Ccl19-ps1, LOC621580, LOC545611, LOC100042524, LOC100042519, LOC100039817, LOC100042536, LOC100039824, LOC100042539, LOC100042544, LOC100039848, LOC100039863, LOC100042555, 1700045I11Rik, LOC100039894, LOC100039909, EG545605, LOC674214, LOC100038965, LOC100039053, LOC100039193
Downstream geneLOC100039374, LOC100039930, LOC100038993, LOC100039939, Ccl19-ps3, Ccl21c, LOC100039323, LOC665845, LOC100039973, LOC100039986, 4933409K07Rik, LOC100039344, LOC100039995, EG623054, Ccl19-ps2, LOC100039331, LOC100039131, LOC100040035, LOC100040048, Il11ra2, LOC665962, LOC545614, 1700008B15Rik, Ccl19, Ccl21b, LOC100039205, LOC433698, BC049635, N28178, Dnajb5, 1700022I11Rik, Vcp, Fancg, Pigo, Stoml2, B230312A22Rik, Unc13b
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-338P06.T7 (MSMg01no338_p06.b1)MSMg01-338P06.TJ (MSMg01no338_p06.g1)
ACCAG453359AG453360
length729560
length of high quality
(start - end)		592 (44 - 635)---
definitionCHROMAT_FILE: MSMg01no338_p06.b1 PHD_FILE: MSMg01no338_p06.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:27:41 2005CHROMAT_FILE: MSMg01no338_p06.g1 PHD_FILE: MSMg01no338_p06.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:27:42 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
TATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTCCAAGAGGATCCGCGGA
ATTCATGTTTTCTCTATACTTTTTTCCATAGAATATATTTTGGTCATACT
TCCCTCTTCCCCAGCTTCTTCCAGATCTTCTCTGCCCACATATTGTTACA
CATAAATTCATGGTGCTACTCAGTCCTCATCATCCACAACTGGACAAGGT
GGAGGGAAGAGGGAGACTCTGGAGCACTCAGCCTTAAGTGGATGTCTTTA
TTAAGATACCTCCTGCCAACGCTTAGGGATCTGTGTGGAAGATGAAGCAG
AAAGATTGAAGAGCCAGTTTATGATCTTAAGGAGGCAGAGTCTTCTCCAC
AAATTCTTTTTTTAAATAAGTCTTCTCTTTCTTTTCTTTTCTCTTCTCTT
CTCTTCTCTTCTCTTCTCTTCTCTTCTCTTCTCTTCTCTTCTCTTCTCTT
CTCTTCTCTTCTCTTCTCTTCTCTTCTCTTCTCTTCTCTTCTCTTCTCAT
TCTCCTCTCCTCTCCTCTCCTCTCCTCTCCTCTGTTCTTTTCTTTTCCTT
TCCTTTCCTTTCCTTTCCTTTCCTTTCCTTTCCTTTCCTTTCCTTTCCTT
TCCTTTCCTTTCCTTTCCTTTCCTTTCCTTTCCTTTCCTTTCCTTTCCCT
TCCTTTCCTATCCATTCCTTTTCCTTTCCTTTCCTTTTCCCTCTCTTTTT
CCTACCCCTAAAAAACCTCTCGCCCGGTN

NTTTTTTTCCCCNCCCCCCCCTCCATTNNNACCNNNANTTCCCCAATCCT
GCNNACCCNNGNCNTTTCCCANGAACCCCGNNNAAGAACTCCCCCCCNNN
NCTTTNACTAAACACAAAACCAAACAAGGCGGGGCGCCCATGAAACACAA
CCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAANTCNNCNNNN
NNNNNNNTTTAAAAAAAAAAAAACAAAAAAGGCGCGCCCNNTNNNNNTTT
AAATAACAAAAAAAAAAAAAANCNNNNNNNNNCNNNNNNNNNNNGGTTGT
GTCTCCCAATCCGGCCGGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNC
CNNNNNNNNNCCNNCNNNNNNCNNNNCNCCCCCNNNCNCNCCNNNNNNCC
CCCCNNNCCCCCCCCCCCNNNNNNNNNNNTNNNNCNNCCNCNNCCCCCCC
CCCCCCCCCNNNCCCCCCCCCCCCCCCCCCNNNNNCCCNCCCCCCCNCCC
CNNNNNCCNCCNNCCCNNNNTTCCCCCCCCCCCCCCCCTCCCCCCCCCCC
ACCTAGCCCA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no338_p06.b1 MSMg01no338_p06.b1 CHROMAT_FILE:
MSMg01no338_p06.b1 PHD_FILE: MSMg01no338_p06.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:27:41 2005
         (592 letters)



>mm_chr4_42275288_42276280
          Length = 993

 Score =  789 bits (408), Expect = 0.0
 Identities = 509/550 (92%), Gaps = 26/550 (4%)
 Strand = Plus / Plus

                                                                       
Query: 6   gaattcatgttt-tctctatactttttt-ccatagaatatattttggtcatacttccctc 63
           |||||||||||| | | ||||||||||| |||||||||||||||||||||||||||||||
Sbjct: 206 gaattcatgtttattt-tatactttttttccatagaatatattttggtcatacttccctc 264

                                                                       
Query: 64  ttccccagcttcttccagatcttctctgcccacatattgttacacataaattcatggtgc 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 ttccccagcttcttccagatcttctctgcccacatattgttacacataaattcatggtgc 324

                                                                       
Query: 124 tactcagtcctcatcatccacaactggacaaggtggagggaagagggagactctggagca 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 tactcagtcctcatcatccacaactggacaaggtggagggaagagggagactctggagca 384

                                                                       
Query: 184 ctcagccttaagtggatgtctttattaagatacctcctgccaacgcttagggatctgtgt 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 ctcagccttaagtggatgtctttattaagatacctcctgccaacgcttagggatctgtgt 444

                                                                       
Query: 244 ggaagatgaagcagaaagattgaagagccagtttatgatcttaaggaggcagagtcttct 303
           ||||||||||||||||||||||||||||||||  ||||||||||||||||||||||||||
Sbjct: 445 ggaagatgaagcagaaagattgaagagccagtggatgatcttaaggaggcagagtcttct 504

                                                                       
Query: 304 ccacaaattctttttttaaataagtcttctctttcttttcttttctcttctcttctcttc 363
           |||||||||||||||||||||||||||||||||||||||||     ||||||||||||||
Sbjct: 505 ccacaaattctttttttaaataagtcttctctttcttttct-----cttctcttctcttc 559

                                                                       
Query: 364 tcttctcttctcttctcttctcttctcttctcttctcttctcttctcttctcttctc-tt 422
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 560 tcttctcttctcttctcttctcttctcttctcttctcttctcttctcttctcttctcgtt 619

                                                                       
Query: 423 ctcttctcttctcttctcttctcttctcttctcattctcctctcctctcctctcctctcc 482
           ||| |||| |||| |||| ||| |||| ||   ||| |||| |  |||  | |  |||  
Sbjct: 620 ctcctctcctctcctctcctctgttctttt---att-tccttt--tct--t-t--tct-- 666

                                                                       
Query: 483 tctcctctgttcttttcttttcctttcctttcctttcctttcctttcctttcctttcctt 542
           | |  ||| ||||||||||||| |||| |||| ||||||||||||||||||||||| |||
Sbjct: 667 t-t--tcttttcttttcttttcttttcttttc-tttcctttcctttcctttccttttctt 722

                     
Query: 543 tcctttcctt 552
           | ||||||||
Sbjct: 723 ttctttcctt 732


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: 90
Number of extensions: 27
Number of successful extensions: 27
Number of sequences better than 10.0: 1
Number of HSP's gapped: 24
Number of HSP's successfully gapped: 1
Length of query: 592
Length of database: 993
Length adjustment: 10
Effective length of query: 582
Effective length of database: 983
Effective search space:   572106
Effective search space used:   572106
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)


| Home | SequenceCutter | Blast | Download |