BAC Information

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BAC

Clone NameMSMg01-303M05
Chromosome4 (Build37)
Map Location 100,374,171 - 100,527,241
singlet/doubletdoublet
Overlap geneCachd1
Upstream geneAlg6, Itgb3bp, BC020077, Pgm2, Ror1, Ube2u, LOC277707, LOC621573
Downstream geneLOC100039747, Raver2, Jak1, E130102H24Rik, Ak3l1, LOC669460, Dnajc6, Leprot, Lepr, B020004J07Rik
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-303M05.T7 (MSMg01no303_m05.b1)MSMg01-303M05.TJ (MSMg01no303_m05.g1)
ACCAG429260AG429261
length747744
length of high quality
(start - end)
234 (125 - 358)561 (75 - 635)
definitionCHROMAT_FILE: MSMg01no303_m05.b1 PHD_FILE: MSMg01no303_m05.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:41:45 2005CHROMAT_FILE: MSMg01no303_m05.g1 PHD_FILE: MSMg01no303_m05.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:41:45 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(100,527,008 - 100,527,241)(100,374,171 - 100,374,278)
sequence
TATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAA
TTCTGTAGCAGACCCACAATTAAAGTAATATGTTTTCTATAGAAAACTTG
AAAATACTTAAAGGATAAAGCAAGAAATCTGTCTCACTGCCCAGGGGGAA
CCAGTGTTGTTTATAAGTTACTTCATTTCCTTCCAGACTTCTTGAGTGTC
TAGCTCCAAGCCTTGTAATTCTCTAGAAATTAGGTTAGGCCTCAACTCCC
GGCCACACTACATTACACATGGTAAGTATAAATGATTCGTGCCCCTGTTA
AACTATTTTATTAAGCCATACAGATGGCTATTATATTTTAGTTGTTTGTT
CAACCAGCTATTATAAAGAAGGAATCTTTTTAATCCTTGAGATTAAACAA
AACAAAACAAAACCCACCAAACAACAAAAACCCTGAAATTCTCCCATCCT
CTCAATATAGTCCTTGAACCTCAATTTTTTCTTCTCTTCCCAGTTCCTTG
AAGCTCAGCTCCAACACACACAACCACCACCATCACCACCACCACCACCA
ACCACCACTACCAATGGTGGACCACACAAATTGTGAGTTCCTTGACCTGA
TGGCCTTTCACTTTTACACCCTTCAAACCAAACTCTTCTCTGAATAGTAA
AGTACCTGGGTGACTCTCAAGTTGGTGACAAGTGTCACCTTCTCAAAGGG
CTGCCTCTTTGGGGTTACTCTATCCCTCAAAAGGTATTACTGGGTAA
ATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXCTTCTTTACAAAGAAACCTTTTTCTT
ACCGTGATTAGTTGGATGTGTCGGCGGGGACCTTCAGACAGGGGATCCTA
CCCCACATTTCTATCACCACTGGCAGACGTCCTGAAAGACCCCCGAAGGG
AGACCCTCACTCAAGCCTCGGGACAGCCGCGGACCCAAGAAGACACTGAG
ACCGAACTCAAAATGTTGAAGGCAAGATTTAATAAAGCAGCAGCATGAAA
GCACATAGACCAGAGCTCTGGGGTCGAAACTCATACACCTAGTGGTGTAG
AGGAGAATCGACGACCAGCCAAATTTTTCACAGGCTTATATAGGAAAACT
CAAGGGGGGAGAGCGCCGCAGGGAAAGTACAAATTTACATAACTAAGGGG
TTCTGCCAAGGGACAAGGGGTTCTGCCAAGGGATTCTACGTAACTAAGGG
GTCATGTCCTATTATTTGGCAATGTATCCGGTTCATTCTGAGGTTGTTCC
AGGAGGCCCTTATCTCTAAAATGTTCTTGGAACAGTCTTTAGTTGGGAGG
GTTCGAACTCTAGGGTGAGGAGTTCAAGAATGCATTCTGGGGTGAAGAGT
TCAGGAATGTTCTGGGTACACTCTCTAGATGGGAGGGGTCGGGCTCTGGG
GTGAGCAAGATGTCAGTACTTTTTTTCCTCATCTCCCTCCCCTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no303_m05.b1 MSMg01no303_m05.b1 CHROMAT_FILE:
MSMg01no303_m05.b1 PHD_FILE: MSMg01no303_m05.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:41:45 2005
         (234 letters)



>mm_chr4_100526808_100527441
          Length = 634

 Score =  437 bits (226), Expect = e-127
 Identities = 232/234 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   aaatctgtctcactgcccagggggaaccagtgttgtttataagttacttcatttccttcc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 434 aaatctgtctcactgcccagggggaaccagtgttgtttataagttacttcatttccttcc 375

                                                                       
Query: 61  agacttcttgagtgtctagctccaagccttgtaattctctagaaattaggttaggcctca 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 374 agacttcttgagtgtctagctccaagccttgtaattctctagaaattaggttaggcctca 315

                                                                       
Query: 121 actcccggccacactacattacacatggtaagtataaatgattcgtgcccctgttaaact 180
           ||||||||||||||||||||||||||| ||||||||||||||||||| ||||||||||||
Sbjct: 314 actcccggccacactacattacacatgctaagtataaatgattcgtgtccctgttaaact 255

                                                                 
Query: 181 attttattaagccatacagatggctattatattttagttgtttgttcaaccagc 234
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 254 attttattaagccatacagatggctattatattttagttgtttgttcaaccagc 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: 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: 234
Length of database: 634
Length adjustment: 9
Effective length of query: 225
Effective length of database: 625
Effective search space:   140625
Effective search space used:   140625
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= MSMg01no303_m05.g1 MSMg01no303_m05.g1 CHROMAT_FILE:
MSMg01no303_m05.g1 PHD_FILE: MSMg01no303_m05.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:41:45 2005
         (561 letters)



>mm_chr4_100373971_100374931
          Length = 961

 Score =  209 bits (108), Expect = 4e-58
 Identities = 108/108 (100%)
 Strand = Plus / Plus

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

                                                           
Query: 61  cagacaggggatcctaccccacatttctatcaccactggcagacgtcc 108
           ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 cagacaggggatcctaccccacatttctatcaccactggcagacgtcc 308


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: 5
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: 561
Length of database: 961
Length adjustment: 10
Effective length of query: 551
Effective length of database: 951
Effective search space:   524001
Effective search space used:   524001
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)