BAC Information

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BAC

Clone NameMSMg01-380M08
Chromosome18 (Build37)
Map Location 60,986,029 - 61,158,861
singlet/doubletdoublet
Overlap geneTcof1, LOC100042699, Arsi, Camk2a, Slc6a7
Upstream geneEG240327, LOC546714, EG225594, F830016B08Rik, LOC667578, EG667584, LOC435565, Iigp1, EG629292, LOC667597, 2010002N04Rik, Dctn4, Rbm22, Myoz3, Synpo, LOC100042675, Ndst1, Rps14, LOC667619, Cd74
Downstream geneCdx1, Pdgfrb, Csf1r, A630042L21Rik, Slc26a2, Pde6a, EG667279, Ppargc1b, LOC667675, 4933429F08Rik, Csnk1a1, Il17b, Pcyox1l, LOC100042730, Grpel2, Afap1l1, LOC100042738, Ablim3, Sh3tc2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-380M08.T7 (MSMg01no380_m08.b1)MSMg01-380M08.TJ (MSMg01no380_m08.g1)
ACCAG485068AG485069
length746779
length of high quality
(start - end)
242 (62 - 303)240 (63 - 302)
definitionCHROMAT_FILE: MSMg01no380_m08.b1 PHD_FILE: MSMg01no380_m08.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:21:56 2005CHROMAT_FILE: MSMg01no380_m08.g1 PHD_FILE: MSMg01no380_m08.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:21:56 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(60,986,029 - 60,986,270)(61,158,621 - 61,158,861)
sequence
TGCGGCCGCAAAACGACTCACTAATTCAAGAGAATGCGCGGAATTCCTTC
TGTCCCCCTAGAAAACTATTGGCTTTGTTTTTTTTCAAAATAGAGACCCC
CAGATCTGCAAGACCACTTTAAAGGTTCAATTTTAGCATAATGCTCATTT
TAATTGTGCAAGTCTACTCACACAGAGAAAAACCAAGGCAACCTTCCATA
CTGGCTGTCTGTCCTTTAGGAGTGAGGGAGGTACCTCAGAATGACTGCAG
AGCCAGAGGGCAAAAGCCAAGCCTGGAAGGGGGCTAAAGGGACAGCTGGG
CAGGAGAAATTTTTTACTGCCAGGATTCAAATGTTCTCTGAGCTGCCTCA
GAGTCACAGGCCCCCCTCTCCTTCAAATGGAAATACCCTACTCCCTCAGA
AAGAGGGCAGTGCTGCCTCTACAAAGGCCTGGGTTCACACAGAGCTTGTA
CCATCTTGGTGGCTATGTTGGGCTCCTGAAATCAGAGAAGGTGTCCCGGA
CCTCACCCTTGGTAACAAGGCCAGGCTATGAGCGGCGACCAGCAGACTAT
GAGCATGTGTCATAAACTGCATAAGCCTGACCTGCGGTGGTGCCTACAGA
TTCCTTTTAATGTCCTCCGGTAGGATCTACAGCCCCTATTGTCCCTGGCT
ATCATAAAGCTTCGGTCATTACTGTTCAGCGGTCCCCTAGCTTCTTCCTT
ACATAAAATGCCCCTTATTCCCGTTCTCAACACGTCGTCAAGAAAA
GGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTT
CCTCGAAATCGGTCATTGCCTTGCTTCCACCACTGTGTGACCTGGGGGGC
CAAGCTTTCCCCTTCTCTGAACCTCAGAGTCCTCCTAGGCCTCCCAGAGA
TCTGCCAGTTGCTCCCTTGCTCAAGAACCAGGTGTGTGCAGAGGACAGCA
GGACAGGGCGGCTTGAGCCAAGGACGTCAGCACTTGTGTTTGTTGGATCT
GTGGCTAGCCCCAGGAGCACTCAGATCAGGGCTGCCTTTCATCCGTTAGG
TCTGATTCTTAGCAGCGCTTTAGGGCCCTACTTTCAGTTATCTCTCTAGC
CTTGTTTTCTCTTTAAGGACAGGAATGCTAGCCTATAAGGTAGCTGTGAC
CACAAAAGGAGCCAGCCAGACTGTGGAATAGAAAAACAGAACATTCTTAA
AGTTCAAGATGGCGTCTATCTAGGTTTAAATCTTATTGCCCTACTTCTAG
CCTGTGTGACCTTGGCCATTTTATCTACCTCTCTGAGCTTTAACTTTTCA
TATCATATCTGTGGAAGTTATGGGGTCGGGAACTACCCTAACTCTTTTAT
AGGTTACCACCCAATATCGCCCAAGGCTTTTTTCTCTTTCATAATCTTTG
TTATTGTTATGTTCTCCATTTCTTCCACTCTGTTTTTTCCTTTCTCTCCG
TGGATTTTTTCCCTGAACTCTCTTTCCTTCCGTTAACTTTTGTTCTTTGC
CACGCGCAGAGTTAATATCCAACGGTCTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no380_m08.b1 MSMg01no380_m08.b1 CHROMAT_FILE:
MSMg01no380_m08.b1 PHD_FILE: MSMg01no380_m08.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:21:56 2005
         (242 letters)



>mm_chr18_60985829_60986470
          Length = 642

 Score =  453 bits (234), Expect = e-132
 Identities = 240/242 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   aaaactattggctttgttttttttcaaaatagagacccccagatctgcaagaccacttta 60
           |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 aaaattattggctttgttttttttcaaaatagagacccccagatctgcaagaccacttta 260

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

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

                                                                       
Query: 181 tgactgcagagccagagggcaaaagccaagcctggaagggggctaaagggacagctgggc 240
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 agactgcagagccagagggcaaaagccaagcctggaagggggctaaagggacagctgggc 440

             
Query: 241 ag 242
           ||
Sbjct: 441 ag 442


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: 10
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: 242
Length of database: 642
Length adjustment: 9
Effective length of query: 233
Effective length of database: 633
Effective search space:   147489
Effective search space used:   147489
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= MSMg01no380_m08.g1 MSMg01no380_m08.g1 CHROMAT_FILE:
MSMg01no380_m08.g1 PHD_FILE: MSMg01no380_m08.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:21:56 2005
         (240 letters)



>mm_chr18_61158421_61159061
          Length = 641

 Score =  435 bits (225), Expect = e-126
 Identities = 237/241 (98%), Gaps = 1/241 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   tcattgccttgcttcc-accactgtgtgacctggggggccaagctttccccttctctgaa 59
           |||||||| ||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 tcattgccctgcttccaaccactgtgtgacctggggggccaagctttccccttctctgaa 382

                                                                       
Query: 60  cctcagagtcctcctaggcctcccagagatctgccagttgctcccttgctcaagaaccag 119
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 cctcagagtcctcctaggcctcccagagatctgccagttgctcccttgctcaagaaccag 322

                                                                       
Query: 120 gtgtgtgcagaggacagcaggacagggcggcttgagccaaggacgtcagcacttgtgttt 179
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 321 gtgtgtgcagaggacagcaggacagggcggcttgagccaaggacgtcagcacttgggttt 262

                                                                       
Query: 180 gttggatctgtggctagccccaggagcactcagatcagggctgcctttcatccgttaggt 239
           ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 261 gttggatctgtggctagccccaggagcactcagatcagggctgcctttcatccattaggt 202

            
Query: 240 c 240
           |
Sbjct: 201 c 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: 10
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: 240
Length of database: 641
Length adjustment: 9
Effective length of query: 231
Effective length of database: 632
Effective search space:   145992
Effective search space used:   145992
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)