BAC Information

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BAC

Clone NameMSMg01-055O05
Chromosome12 (Build37)
Map Location 52,704,742 - 52,705,147
singlet/doubletsinglet
Overlap geneCoch
Upstream genePrkcm, LOC100039517, LOC636070, LOC100039525, 6030408C04Rik, Scfd1, LOC620390, LOC100039578
Downstream geneStrn3, Ap4s1, Hectd1, EG544864, LOC100039476, Heatr5a, LOC676784, 6530401N04Rik, Gpr33, LOC100039627, Nubpl, Arhgap5
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-055O05.T7 (MSMg01no055_o05.b1)MSMg01-055O05.TJ (MSMg01no055_o05.g1)
ACCAG283435AG283436
length707883
length of high quality
(start - end)
403 (46 - 448)---
definitionCHROMAT_FILE: MSMg01no055_o05.b1 PHD_FILE: MSMg01no055_o05.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 16:57:24 2005CHROMAT_FILE: MSMg01no055_o05.g1 PHD_FILE: MSMg01no055_o05.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 16:57:25 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCTAGGGTTCAGCATTTTGTAGAAAGGATCCTTGTGGTGTGAATTTA
TATAGTCTACCAGCTTTGGCGCCTAAGCGAACTGAAATTCTTCCAAGCTC
CACTGAAATTCCATTGGGAGGTTTTGCTATTGTTTTTCAAGACAGGGTTT
CTCTGTGTAACAGCTCTGGCTGTCCCAGAACTCACGTTCTGGACTAGGCT
GACATCAAACTCAGAGTTCCTCCTGCCTCTGCTGCCCAAGTGTTGGGATT
AAAGGCATGTACACACAACACCCAGCTCAAGAAGGGGAGTGTTTTTTAAT
TCACCAGATTGCTTTAAAAACTTGCAATTTAAAAATAACAATATAATTTT
CAAAAACATTTGAGCATTTTTCCTGAGATTATGTATGTGCACCAGGTGTG
TACCTAGTGTCCATGAAGGTCATGAGAGGGCATTGGCCCTGGAACTGGAG
TTATAAATATTTGTGAACTATGTGGATGCTGGAAACTGAATACAGGTTCT
GGTACAAGAGCAACTGATTACCTGCTTGAGCCATCTCTCCCGCTTCCAGA
TCTACCAAGTTTTGATTGTATAATGGATCTGCTCACATTAACTTCCCTGA
CTGAATTATAAACAAATCATTTTATTTTCTAGCCCCCCATTTCTTCTAAT
CACGGCG
CTTTCCCTCTTCTTTCTGCCCCTCCCTTTTCCACCTCCCTCCTCCCCCTC
CTCACCAACTATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXCTCAGGGTAGTACGGAGGACG
CCTTGTTTGCAACTCCAGAGCCCAGTACCTCAGCTGAGACCCACGCTGCC
TCTAACGACACGTGCGCGAGGAAAACGATTCGGAAGCTCGACGCCCATGC
GCTTCCCCTTAGTCAAGGTAGTTTTTAGATTCCACACGCGCACATCACTT
GGTGCCTCGCGCCCGAGTTGGGGCGCCTCCACTTTTCCCTCCCCGCTTCC
CGAACAGCGTTTTTTCCTTCTTCGCTCCCGCGCTGCCCCCGTCTTTCCCG
ATCTTTTTTTGCTTTCTCCCTACCGTTCTCTTGTCTCTCCGCTTTCCTTT
TCTCCTCTTGCTTCTGCTGCTAGTCGGTGTCTCCTTTTTCCCTTCCCCTT
TTCTCTTTGCTTCCTCCTTTCCCTCTTCTTCTCCCCTCTTCCCCCCCTTT
TCCCCTTTATTTTCCTCTTCTTTTCCCCTCTTTCTCTTATTTTCCCCCCC
CTCTCTTCTCCCTTTCTTCCCCTCCCCCCTCTCCCCCCCCCTTTCTCCCT
GTTTTTTCCCCCTATTTTTTACCAGCGCCAATCCCTCCCCTTCTCCCCTC
TTTTTTTCCCCCCCCTTTCCCCTTCTTTATTTCCTCTCTTCCTATTCCCA
CCGCCTCACCCATTATATCCTTCCCTCTCTTTTTTCCTCCCTCTTTTCCT
CTCTTCCTTTTTTCCTTTTTCCGCCTTTTCCCCTTTATCCTCTGTCCCTT
TCCCTTCCTTTCCCTTCTCCTTTTTCCTTTTTA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no055_o05.b1 MSMg01no055_o05.b1 CHROMAT_FILE:
MSMg01no055_o05.b1 PHD_FILE: MSMg01no055_o05.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 16:57:24 2005
         (403 letters)



>mm_chr12_52704542_52705344
          Length = 803

 Score =  700 bits (362), Expect = 0.0
 Identities = 393/406 (96%), Gaps = 7/406 (1%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcta-gggt---tcagcattttgtagaaaggatccttgtggtgtgaatttatatag 60
           |||||||| ||||   |||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 201 gaattctaggggtcggtcagcattttgtagaaaggatccttgcggtgtgaatttatatag 260

                                                                       
Query: 61  tctaccagctttggcgcctaagcgaactgaaattcttccaagctccactgaaattccatt 120
           |||||||||||||| | |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 tctaccagctttggtgtctaagcgaactgaaattcttccaagctccactgaaattccatt 320

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

                                                                       
Query: 181 cagaactcacgttctggactaggctgacatcaaactcagagttcctcctgcctctgctgc 240
           |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 cagaactcacattctggactaggctgacatcaaactcagagttcctcctgcctctgctgc 440

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

                                                                       
Query: 301 ttaattcaccagattgctttaaaaacttgcaatttaaaaataacaatataattttcaaaa 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 501 ttaattcaccagattgctttaaaaacttgcaatttaaaaataacaatataatttttaaaa 560

                                                         
Query: 361 acatttgagcatttttcctgag---attatgtatgtgcaccaggtg 403
           |||||||||||||||||||| |   |||||||||||||||||||||
Sbjct: 561 acatttgagcatttttcctgtgtttattatgtatgtgcaccaggtg 606


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: 19
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: 403
Length of database: 803
Length adjustment: 9
Effective length of query: 394
Effective length of database: 794
Effective search space:   312836
Effective search space used:   312836
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)