BAC Information

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BAC

Clone NameMSMg01-438H17
Chromosome2 (Build37)
Map Location 80,419,075 - 80,419,441
singlet/doubletsinglet
Overlap geneNckap1
Upstream geneSsfa2, Ppp1r1c, Pde1a, LOC668005, Prdx6-rs1, Dnajc10, Frzb
Downstream geneLOC624223, Dusp19, LOC672381, Nup35, LOC103324, LOC668027, LOC100040624, LOC100040655
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-438H17.T7 (MSMg01no438_h17.b1)MSMg01-438H17.TJ (MSMg01no438_h17.g1)
ACCAG529065AG529066
length790797
length of high quality
(start - end)
326 (44 - 369)426 (75 - 500)
definitionCHROMAT_FILE: MSMg01no438_h17.b1 PHD_FILE: MSMg01no438_h17.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:04:17 2005CHROMAT_FILE: MSMg01no438_h17.g1 PHD_FILE: MSMg01no438_h17.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:04:17 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
AXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAA
TTCTAAGCATTTACACTTCGGATTCCAGATCGCTGCCTTTTCTCAGTGTT
TCTCACTTCCTGTTTCGAGAAACTTCATTCAGGCTCTTGTGTTGACTAGA
ATGGAAAATGCGTGAATGTGATTGACCTAATTGTCAAGCATTTGAGTTAC
AGAAATGCTGGGTTCCTTTTGGGAAGAGTAATATTGAAGGCATTATCTAG
CTCACAAGGCTTTGATCAGAGCTGGCTGAAATTGACAGTGTTCATGTTAA
ATGCATTTGATGTTTATTTTGTGAGAGGAAGAGAGAGCAGGTGTGTGTGG
AGGTTAGAGGAGAGCTTGNGNCTTTNTGNTCTGANNNCTTTTGNTGNNCT
TTTTTGTTTGCTTTCCCCCCCCTTCCCTGTGGTTTTGCCCGCCTCCCTCT
TCCCCGCCTGGCTTCTTTCTTGTCGCCTCTGTTCCCGTTTCTTTCCTGCT
CTTCCTTGGTCTGTTCTCTCTTGTTCCTCNTTTTCCCTCGTCTGTCTCCT
TTCCCTTTTCTCCCTTTCCTCTCCCGGTCCTTCTTGCTCCTCTCTTTTCC
TCTCCCTGTGCTCCCTCCTTTTTCTCCCTTTCTTTCTCTCCCTCTTTTTT
TTCTCTGTTCTCCTCCCTCTCTCTCCCCCCCTTTTTTTCCTCCCCCTTCT
TCTTCTTTCTCTTTCCCTTCTTCTCCTCTTTTTTTCTCCTCTCCTTCGCC
CTTGCTCTTTTCTTCCCTTCTTTTTCTCTTCTCTTTCTTN
ATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXTCTCAGTAGAAGAAGAGTAGAAATTC
AATGTCAACCTCAAGTTTAAGGCCAGCCCAGGCTGCATGAAACCCTATGT
CAAAAAAAAAAAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAA
GAAAGAAAGAGAGAAAAGAAGAGAAGAGGAAAGAAAAGAAGAGAAAAGAA
AAGAAGAGAAAAGAGAAAGAAAAAAAGGAATCCCAAATAAGGACAATAAT
TTTTTCTTTCTCTCAGAACTTAGGAAGTTGAGGCAGGGGGATCACAAGTT
TGAGTACAGCCTGAGCTACACAGTGAGCATCTGTCTCAAAAACAACAAAA
GCAACAACAAAAAAAATTTAGCTTTTGTCACCTCAGAAATTTTTTTCATG
TAGCTTCGCATTTTCTTGCACTAAAACCTGCAGTCTATATTGCTTGCTCA
TGNCAGGNATTGTTACTGCATTCTAGCATTAGCTGCAGTTGATAATCATT
ATTTCCATCCTGCCCTTGCCCAGGGGNAACGAAAACCCCCTGCTTCTACC
GCCAATGGGTTTGGGTAAACCTGAAAAAGAAAACTTCTTATTGTTTGTAG
CCCACCCTTGTTCCAAAAACCCCCCCGCCACTTTGTCTCCACCTTTCACC
AAAAACCTTGGGTCACCCCCCCTCCTTTCTCCTTTCCCGCCCCCAACTCC
TTCTATTTAATTCTTCGTCACCTTTTTTCTCCCTCACTATATCCGCG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no438_h17.b1 MSMg01no438_h17.b1 CHROMAT_FILE:
MSMg01no438_h17.b1 PHD_FILE: MSMg01no438_h17.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:04:17 2005
         (326 letters)



>mm_chr2_80419075_80419800
          Length = 726

 Score =  404 bits (209), Expect = e-117
 Identities = 296/367 (80%), Gaps = 64/367 (17%)
 Strand = Plus / Minus

                                                                       
Query: 4   ggaattctaagcatttacacttcggattccagatcgctgccttttctcagtgtttctcac 63
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 367 ggaattctaagcatttaaacttcggattccagatcgctgccttttctcagtgtttctcac 308

                                                                       
Query: 64  ttcctgtttcgagaaacttcattcaggctcttgtgttgactagaatggaaaatgcgtgaa 123
           ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 307 ttcctgttttgagaaacttcattcaggctcttgtgttgactagaatggaaaatgcgtgaa 248

                                                                       
Query: 124 tgtgattgacctaattgtcaagcatttgagttacagaaatgctg---------------- 167
           ||||||||||||||||| ||||||||||||||||||||||||||                
Sbjct: 247 tgtgattgacctaattgccaagcatttgagttacagaaatgctgtatatttcagcacgta 188

                                                                       
Query: 168 ------------------------------------------------ggttccttttgg 179
                                                           |||||||| |||
Sbjct: 187 catattttttatagctttttgaaatattttttgcctccttggcttctgggttccttatgg 128

                                                                       
Query: 180 gaagagtaatattgaaggcattatctagctcacaaggctttgatcagagctggctgaaat 239
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 127 gaagagtaatattgagggcattatctagctcacaaggctttgatcagagctggctgaaat 68

                                                                       
Query: 240 tgacagtgttcatgttaaatgcatttgatgtttattttgtgagaggaagagagagcaggt 299
           |||||||||||||||||||||||| ||||||||||||||||||||||||||||||||| |
Sbjct: 67  tgacagtgttcatgttaaatgcatctgatgtttattttgtgagaggaagagagagcagat 8

                  
Query: 300 gtgtgtg 306
           |||||||
Sbjct: 7   gtgtgtg 1


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: 12
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 326
Length of database: 726
Length adjustment: 9
Effective length of query: 317
Effective length of database: 717
Effective search space:   227289
Effective search space used:   227289
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)