BAC Information

Click to search

BAC

Clone NameMSMg01-270J20
Chromosome2 (Build37)
Map Location 178,548,784 - 178,703,493
singlet/doubletdoublet
Overlap geneLOC100039368
Upstream geneLOC329575, LOC433515, LOC665205, OTTMUSG00000016327, LOC100039263, LOC626848, 2810021G02Rik, Phactr3, Sycp2, Ppp1r3d, 9030418K01Rik, Cdh26
Downstream geneLOC665264, LOC100043168, LOC100039413, Cdh4, Taf4a
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-270J20.T7 (MSMg01no270_j20.b1)MSMg01-270J20.TJ (MSMg01no270_j20.g1)
ACCAG410400AG410401
length730758
length of high quality
(start - end)		300 (58 - 357)277 (69 - 345)
definitionCHROMAT_FILE: MSMg01no270_j20.b1 PHD_FILE: MSMg01no270_j20.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:09:19 2005CHROMAT_FILE: MSMg01no270_j20.g1 PHD_FILE: MSMg01no270_j20.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:09:19 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(178,703,200 - 178,703,493)(178,548,784 - 178,549,059)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXTCTGGGCAGTGGAGTGTGACCCCGGCTCAAAGTAAATTGTAAT
GGAGGGTTCAGCATGTGGCTGGGTGGTAGAGCACCTGCAAAGCAGAGACG
AAGACCTAGCTATGTTCCATGCCTAGTTATTACAATTAAAAATTGGTCGG
AAACATGGAGTCCCCGAAGGACACAGCCCAAGCATCAGCTGTCTCCACTG
CAGGGTCACTGGGAGCCCCTCCCTCTCAGGAGACCCTCCCATCCCTGCCT
TCCACAGCCATGAAAGTTGCTCAGGGTCTAATTTAGCAGGCTTTGAGCTC
CCGACACTTTTTTGAGTGCCCCTTCACCCAAGGATCATTCTTCCTTTGTC
TGGGAAGAATGACTTCCCAGGAGCACATGTACGTGAACACTCTTACTCAT
ATGGAATTTAAGTCACAGTGAGTGAGTTTGGCATTTAATAATGACCATGG
TGACTCTTGTCTGTCCTTGCAACACCCTATATTCAGTCTATCATTCTTAC
ATACAATTCAGGCAGGCATGCATGAACACATGCTCGCACACTTCATGGGA
ATCATATGAAGGCCTATGTAATCTTGGTTGACTTCCCGGGAGGCAGAGGT
GTATATTTCTATTCTTTGGAAGCTGGAACAGAGAGAACTCAAGTTACAGC
CACTGTGAAGGAAGCAAACCATGCTGGCCA

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXCATTAAGACAATGGAGTGCTGGGTCGGATCTG
AGGCCCCGGAGCTCCCGATGGAACCTGCAGAATCTTTACCACTATGACTT
TTTCTCTGTCACTTCCTTTGTGAGCAGAGAAGAGTTAATCTGTCAACAGC
TAGAAATTAAATCAGTTTTAAAAGCTGAGAAAAGAGGATAGAATTTGTAT
ATGCATGTGCATATAAGTGTAATATAGATATGTTTATCTCCATATACTTA
CTGGGTGATAGAGGGGAAGAGGAGGGGAGGGAGAGATGGAGATANNNNNN
NTTTTTTTTTTTNNNNTNNNNTTTTNNTTTTTTTTTTTTTNNTTTTTTTT
TTTTTTTTTTTTTTTTTTNTTTTTTTTTTTNTTTTTTTTTNTTTTTTTTT
TTTTTTTNNTNTTTTTTTNNTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
TTTTNTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
TTTTTTTNTTTTTTTTNTTTTTTTTNTTTNTTTTTTTTTTTTTTTTTTTT
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
TTTTTTTTTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTNNTTTT
TTTNTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCCTTTTTNTTTTTTT
TTTTTTTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no270_j20.b1 MSMg01no270_j20.b1 CHROMAT_FILE:
MSMg01no270_j20.b1 PHD_FILE: MSMg01no270_j20.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:09:19 2005
         (300 letters)



>mm_chr2_178702994_178703693
          Length = 700

 Score =  569 bits (294), Expect = e-166
 Identities = 294/294 (100%)
 Strand = Plus / Minus

                                                                       
Query: 7   cagtggagtgtgaccccggctcaaagtaaattgtaatggagggttcagcatgtggctggg 66
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 500 cagtggagtgtgaccccggctcaaagtaaattgtaatggagggttcagcatgtggctggg 441

                                                                       
Query: 67  tggtagagcacctgcaaagcagagacgaagacctagctatgttccatgcctagttattac 126
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 440 tggtagagcacctgcaaagcagagacgaagacctagctatgttccatgcctagttattac 381

                                                                       
Query: 127 aattaaaaattggtcggaaacatggagtccccgaaggacacagcccaagcatcagctgtc 186
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 380 aattaaaaattggtcggaaacatggagtccccgaaggacacagcccaagcatcagctgtc 321

                                                                       
Query: 187 tccactgcagggtcactgggagcccctccctctcaggagaccctcccatccctgccttcc 246
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 320 tccactgcagggtcactgggagcccctccctctcaggagaccctcccatccctgccttcc 261

                                                                 
Query: 247 acagccatgaaagttgctcagggtctaatttagcaggctttgagctcccgacac 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 260 acagccatgaaagttgctcagggtctaatttagcaggctttgagctcccgacac 207


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: 14
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: 300
Length of database: 700
Length adjustment: 9
Effective length of query: 291
Effective length of database: 691
Effective search space:   201081
Effective search space used:   201081
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= MSMg01no270_j20.g1 MSMg01no270_j20.g1 CHROMAT_FILE:
MSMg01no270_j20.g1 PHD_FILE: MSMg01no270_j20.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:09:19 2005
         (277 letters)



>mm_chr2_178548584_178549260
          Length = 677

 Score =  518 bits (268), Expect = e-151
 Identities = 274/276 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   cattaagacaatggagtgctgggtcggatctgaggccccggagctcccgatggaacctgc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 201 cattaagacaatggagtgctgggtcggatctgaggccccggagctcccgatgggacctgc 260

                                                                       
Query: 61  agaatctttaccactatgactttttctctgtcacttcctttgtgagcagagaagagttaa 120
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 ggaatctttaccactatgactttttctctgtcacttcctttgtgagcagagaagagttaa 320

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

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

                                               
Query: 241 tagaggggaagaggaggggagggagagatggagata 276
           ||||||||||||||||||||||||||||||||||||
Sbjct: 441 tagaggggaagaggaggggagggagagatggagata 476


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: 277
Length of database: 677
Length adjustment: 9
Effective length of query: 268
Effective length of database: 668
Effective search space:   179024
Effective search space used:   179024
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)


| Home | SequenceCutter | Blast | Download |