BAC Information

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BAC

Clone NameMSMg01-090A24
Chromosome4 (Build37)
Map Location 100,496,320 - 100,643,651
singlet/doubletdoublet
Overlap geneCachd1
Upstream geneBC020077, Pgm2, Ror1, Ube2u, LOC277707, LOC621573
Downstream geneLOC100039747, Raver2, Jak1, E130102H24Rik, Ak3l1, LOC669460, Dnajc6, Leprot, Lepr, B020004J07Rik, LOC665362, C130073F10Rik, LOC384033, LOC381535, LOC332923, LOC100039834
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-090A24.T7 (MSMg01no090_a24.b1)MSMg01-090A24.TJ (MSMg01no090_a24.g1)
ACCAG308394AG308395
length694701
length of high quality
(start - end)
385 (75 - 459)233 (135 - 367)
definitionCHROMAT_FILE: MSMg01no090_a24.b1 PHD_FILE: MSMg01no090_a24.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:43:06 2005CHROMAT_FILE: MSMg01no090_a24.g1 PHD_FILE: MSMg01no090_a24.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:43:06 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(100,496,320 - 100,496,708)(100,643,419 - 100,643,651)
sequence
CTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCCTTTTTCTCCAACCACTAGATAATTGAACTATTTCTACTTATCTTA
ACCAGACTGGATGCTCTACCCCTAATTTCTTTAGGGTACCTTGGAAAATA
GAATGGGGGGCGGGGCTGGGAAACTTCCAGGCTTTCGATCATAATGAAAA
CAGGAAATACCGTAAACCCTATCACTTTGGGTGAAAGATTAAATTTAACA
ATCTCTCAACCAAGACATGCTTCCAGCCTGATTGGACTGACATTTATATA
GGACCTCTGGAATATAATCTCATGCAATTAAAGAGGAAAATGGGTTTTTT
AGCCTTGCAAGCCTGAACTCTCTCGAGCACTTTCCCTTGCTTAAATGATC
ATGACTGTTTGTATGTGGGTGATATGCCCTCCTCGTGTGAAAAACGCTAT
TAAGCCCGCCTGAGATACAGCCTGCTCTGTTCACAGTGAGCCTCTGTGAC
TGCTATTAGCTCCATAGCTGCCTCGTGGAGAGGGTGATGGGAAATTAAGG
CATGAAGAAAGGCTTGTGGACTGACACTGTTTGTGCATGCACGTGAGCTG
ATGTCTATCTGATTAGTGATCAGGGTATGGGATTCAGGCTTTGGGTTTTT
CCCATCTAAAGGCTAAAAACAGCGGTGGTGTACATCTCCTTTAA
NNNCCGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXTTTCCCTGCAATTCTTATGATCTGAATGAGCAAGATAA
TGAAGGAAGTGGGGGAGCCTTTGACCGTCACCTAGTGTTGCCAGCTGCTT
GAAGTGGAGGCAAGCACTGGGTTGGCCCAGAAGATCCAGTCGGTGGTACA
GGAGCTTGCTGCTGGGTACAGTGTTGAGGTTTTTCAATTGTTTGACGGGT
ATTTCCGGTTGTATCACCACAATACACAGAATGAAGGAAGTGTCCTGTAC
CTGTAAAAACAAACAAATAAGCAATGTATTCCTAATGCAGAAGATTACAT
ATAGTATTTGTTTTCTGATGTCTGTTTTCTCACTGGGAAGATGGTAATGT
ATAGAGGCTGTAAGGCTTTACAGAAGGTTGACTGTTTTCCTTTCTCTTGG
CAGGGCACTTGTGTGTAACACATCCTACAGCCAATGAATGAAGGGAAAAG
GAGTCTATTGGCAACTGTGACCCTGGTTTGTCAGGCTTAGATGGGTTAAT
GGACATGTAGATGTGCCTGTACCTGTGTGTCTGCATGTGTGCATGTGCGT
GTGTGTGATAATACCAGTAGAGTGAAGTGTTAATTTCTACCTCTGGCTTT
AAATGCACAAGAAGATCTGGGCTATGCTTCACTGATAGTGTTTGACTAGT
G
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no090_a24.b1 MSMg01no090_a24.b1 CHROMAT_FILE:
MSMg01no090_a24.b1 PHD_FILE: MSMg01no090_a24.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:43:06 2005
         (385 letters)



>mm_chr4_100496120_100496908
          Length = 789

 Score =  663 bits (343), Expect = 0.0
 Identities = 376/393 (95%), Gaps = 12/393 (3%)
 Strand = Plus / Plus

                                                                       
Query: 1   taattgaactatttctacttatcttaaccagactggatgctctacccc-----taatttc 55
           ||||||||||||||||||||||||||||||||||||||||||||         |||||||
Sbjct: 201 taattgaactatttctacttatcttaaccagactggatgctcta----aaaagtaatttc 256

                                                                       
Query: 56  tttagggtaccttggaaaatagaatgggggg---cggggctgggaaacttccaggctttc 112
           |||||||||||||||||||||||||||||||   ||||||||||||||||||||||||||
Sbjct: 257 tttagggtaccttggaaaatagaatgggggggggcggggctgggaaacttccaggctttc 316

                                                                       
Query: 113 gatcataatgaaaacaggaaataccgtaaaccctatcactttgggtgaaagattaaattt 172
           ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct: 317 gatcataatgaaaacaggaaataccataaaccctatcactttgggtgaaagattaaattt 376

                                                                       
Query: 173 aacaatctctcaaccaagacatgcttccagcctgattggactgacatttatataggacct 232
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 377 aacaatctctcaaccaagacatgcttccagcctgattggactgacatttatataggacct 436

                                                                       
Query: 233 ctggaatataatctcatgcaattaaagaggaaaatgggttttttagccttgcaagcctga 292
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 437 ctggaatataagctcatgcaattaaagaggaaaatgggttttttagccttgcaagcctga 496

                                                                       
Query: 293 actctctcgagcactttcccttgcttaaatgatcatgactgtttgtatgtgggtgatatg 352
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 497 actctctcgagcactttcccttgcttaaatgatcatgactgtttgtatgtgggtgatatg 556

                                            
Query: 353 ccctcctcgtgtgaaaaacgctattaagcccgc 385
             |||||||||||||||| ||||||||||||||
Sbjct: 557 gtctcctcgtgtgaaaaatgctattaagcccgc 589


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: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 385
Length of database: 789
Length adjustment: 9
Effective length of query: 376
Effective length of database: 780
Effective search space:   293280
Effective search space used:   293280
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= MSMg01no090_a24.g1 MSMg01no090_a24.g1 CHROMAT_FILE:
MSMg01no090_a24.g1 PHD_FILE: MSMg01no090_a24.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:43:06 2005
         (233 letters)



>mm_chr4_100643219_100643851
          Length = 633

 Score =  435 bits (225), Expect = e-126
 Identities = 231/233 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   gtgttgccagctgcttgaagtggaggcaagcactgggttggcccagaagatccagtcggt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 433 gtgttgccagctgcttgaagtggaggcaagcactgggttggcccagaagatccagtcggt 374

                                                                       
Query: 61  ggtacaggagcttgctgctgggtacagtgttgaggtttttcaattgtttgacgggtattt 120
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 373 ggtacaggagcttgctgctcggtacagtgttgaggtttttcaattgtttgacgggtattt 314

                                                                       
Query: 121 ccggttgtatcaccacaatacacagaatgaaggaagtgtcctgtacctgtaaaaacaaac 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 313 ccggttgtatcaccacaatacacagaatgaaggaagtgtcctgtacctgtaaaaacaaac 254

                                                                
Query: 181 aaataagcaatgtattcctaatgcagaagattacatatagtatttgttttctg 233
           |||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 253 aaataagcaatggattcctaatgcagaagattacatatagtatttgttttctg 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: 11
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: 233
Length of database: 633
Length adjustment: 9
Effective length of query: 224
Effective length of database: 624
Effective search space:   139776
Effective search space used:   139776
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)