BAC Information

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BAC

Clone NameMSMg01-235C01
Chromosome8 (Build37)
Map Location 85,603,240 - 85,765,589
singlet/doubletdoublet
Overlap geneRnf150, LOC100039688, Tbc1d9
Upstream geneInpp4b, LOC671182, Il15, EG666564, LOC675800, EG666289, Zfp330
Downstream geneUcp1, Elmod2, 4933434I20Rik, Clgn, Scoc, LOC546077, LOC675854, Olfr370, Ndufb7, Gpsn2, Dnajb1, Gipc1, Ptger1, Pkn1, Ddx39, Cd97, EG384857, Lphn1, Asf1b, Prkaca, Samd1, 1700067K01Rik, 2210011C24Rik, 4432412L15Rik, Il27ra, Rln3, C330011M18Rik, Rfx1, BC057552, LOC100039920, Podnl1, Cc2d1a, 4930432K21Rik, Nanos3, Zswim4
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-235C01.T7 (MSMg01no235_c01.b1)MSMg01-235C01.TJ (MSMg01no235_c01.g1)
ACCAG400803AG400804
length695707
length of high quality
(start - end)
310 (367 - 676)282 (77 - 358)
definitionCHROMAT_FILE: MSMg01no235_c01.b1 PHD_FILE: MSMg01no235_c01.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:52:22 2005CHROMAT_FILE: MSMg01no235_c01.g1 PHD_FILE: MSMg01no235_c01.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:52:22 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(85,603,240 - 85,603,549)(85,765,308 - 85,765,589)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCAGTGA
TTGCCACCGTCCTCAAATACGAAATCCTTGTATTTCCCAGTGGTCCCTTG
GGAGTTGTGCGCTAGCATCTGAGATGTGTCAGAGCTCTGTCTTCCATGGA
TTGATCCGTGCGAAGCAGTTCGTTTCTCTAAGACTTGTTCTTCAGGGCAC
AGCTCTGTTATTTCCTCTTTGTCTCTTTTAAAGTATCTTAGAAATACACT
GCTCTTTATTAAATACATATATTTTCCTTAAATGTCCTTACCATGGCAAA
TGCCATCAGCAACAGCCAAAGCAAGCAAAAGTATTACAGCGACCATCAGT
CTTCGTTTCATACACATCTTTATTGGTCTTTTAATTGCGTGGTTATCCAG
CAGAGCGATAGAAAGCATAAGACTTTATGGATTACAGCTGCCTTTAGGCA
GATCTTGAGACTCCCCCAGCCTACTCCCTAGCTTGGTTGTGCATTCCAGT
CATATTTGAATACCGTCTGATGTCTGCCTGTCCACAACAGCCCTCATCAC
TTGCAGCCATCTGTGTACACTGTGACTACTACTTAAAGGATCAGTCTATG
TTACTCATCTGACTAAAGTACCAATTATCCTTAGGACTCAGTTTTGACAT
CACACCCTATGGCACATGCCATCTTTGACCCAGCATATGGCTCCN
CCGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXTTCAGGAGATCGCCGCCGGTACAT
GGTCATGAGGGTCTGGGTGGCTGTAGGGACACTGTTGCCATTGAGGTTAA
AGGGGCGTTCTCCATCAGCATCCGAGCTTGTGCTTCTCTGGGGACTGGAG
GAAACGAGGCTGCTGGGCCGAGAATACACCTGTCAATGGAGAAGGACACA
CATGAATGAGCCTGGTGGCATAGCTCCCTTCTCTGTACAGTATTAACAGC
TAGGTCATGTTTTCCCTCTTGCTGTGTGAAGAAGTGGGAAATACCAGCAA
GTCAACACCTTTTAGAAGCCACTCTGCCCCAAAGTCATAATTCCAGCATT
CATTGCTCCAGAGTTTGCAGTCCTGGGGCTAGGCGTGTAGCTCAGCTGGT
AGAGGGTTTGCTTACAGTGCACACGGCCCTGGGCTTCATCCCCAGCAGCA
CACAAACGGGCTGAGGTGGCCTGAGTCTATAATCCCAGCATCCCGGAAGG
TGGAGCCATTGTCAGCTACACAGCCAAGTTCCAGGCTGGTTCTCTGTCCC
CCCACCCAACCCCCAAAAAAGGAAAAGAAAGAAGGAAAGAAAAAGATAAA
GAACATAGGATAACTGTTCAAGGATTTCTATTATCTGCGGAGAGATCAGA
GAACTAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no235_c01.b1 MSMg01no235_c01.b1 CHROMAT_FILE:
MSMg01no235_c01.b1 PHD_FILE: MSMg01no235_c01.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:52:22 2005
         (310 letters)



>mm_chr8_85603040_85603749
          Length = 710

 Score =  600 bits (310), Expect = e-176
 Identities = 310/310 (100%)
 Strand = Plus / Plus

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

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

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

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

                                                                       
Query: 241 atctgactaaagtaccaattatccttaggactcagttttgacatcacaccctatggcaca 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 atctgactaaagtaccaattatccttaggactcagttttgacatcacaccctatggcaca 500

                     
Query: 301 tgccatcttt 310
           ||||||||||
Sbjct: 501 tgccatcttt 510


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: 310
Length of database: 710
Length adjustment: 9
Effective length of query: 301
Effective length of database: 701
Effective search space:   211001
Effective search space used:   211001
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= MSMg01no235_c01.g1 MSMg01no235_c01.g1 CHROMAT_FILE:
MSMg01no235_c01.g1 PHD_FILE: MSMg01no235_c01.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:52:22 2005
         (282 letters)



>mm_chr8_85765108_85765789
          Length = 682

 Score =  545 bits (282), Expect = e-160
 Identities = 282/282 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   ttcaggagatcgccgccggtacatggtcatgagggtctgggtggctgtagggacactgtt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 482 ttcaggagatcgccgccggtacatggtcatgagggtctgggtggctgtagggacactgtt 423

                                                                       
Query: 61  gccattgaggttaaaggggcgttctccatcagcatccgagcttgtgcttctctggggact 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 422 gccattgaggttaaaggggcgttctccatcagcatccgagcttgtgcttctctggggact 363

                                                                       
Query: 121 ggaggaaacgaggctgctgggccgagaatacacctgtcaatggagaaggacacacatgaa 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 362 ggaggaaacgaggctgctgggccgagaatacacctgtcaatggagaaggacacacatgaa 303

                                                                       
Query: 181 tgagcctggtggcatagctcccttctctgtacagtattaacagctaggtcatgttttccc 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 302 tgagcctggtggcatagctcccttctctgtacagtattaacagctaggtcatgttttccc 243

                                                     
Query: 241 tcttgctgtgtgaagaagtgggaaataccagcaagtcaacac 282
           ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 242 tcttgctgtgtgaagaagtgggaaataccagcaagtcaacac 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: 15
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: 282
Length of database: 682
Length adjustment: 9
Effective length of query: 273
Effective length of database: 673
Effective search space:   183729
Effective search space used:   183729
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)