BAC Information

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BAC

Clone NameMSMg01-496J05
Chromosome5 (Build37)
Map Location 30,223,899 - 30,389,710
singlet/doubletdoublet
Overlap geneLOC100039369, Il6, Tyms
Upstream geneRnf32, EG664949, Lmbr1, EG620572, Gm1040, Hlxb9, LOC619355, Ube3c, LOC100039363, EG332993, Dnajb6, EG433865, LOC100039405, LOC100034662
Downstream geneEG242914, Gm444, Hadha, Hadhb, Gpr113, EG384325, D5Wsu178e, Gm1060, Otof, 1700001C02Rik, 1700041E20Rik, Kcnk3, 4930471M23Rik, Cenpa, Dpysl5, Mapre3, 1110039B18Rik, 9430057O19Rik, 2310016E02Rik, Emilin1, Khk, Cgref1, Abhd1, Preb, Tcf23, Slc5a6, 0610007C21Rik, Cad
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-496J05.T7 (MSMg01no496_j05.b1)MSMg01-496J05.TJ (MSMg01no496_j05.g1)
ACCAG573348AG573349
length789797
length of high quality
(start - end)		152 (54 - 205)173 (85 - 257)
definitionCHROMAT_FILE: MSMg01no496_j05.b1 PHD_FILE: MSMg01no496_j05.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:21:57 2005CHROMAT_FILE: MSMg01no496_j05.g1 PHD_FILE: MSMg01no496_j05.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:21:57 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(30,223,899 - 30,224,044)(30,389,574 - 30,389,710)
sequence
NNNGGGGGTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXCGCGGAATTCAGTCTTGCTGGAACCCAAGCACTGACATCAGGTCATG
CTCTCGAGCTCTTTGAGGTTAGAATCATGTTTAGTGGCTTCTATCCTTAA
AGCATCAAGATCAGTGAAATTATGAATCTGAAAAAGTGTAGTAGATGATG
GCANGACNNTAAANNNNNNAAAAATCCCCCCCCTTTTGGGTAAGAATTNN
NAGAGTGGAGAATCCAAAATTTTACAAAAATGAACCCAACTTTGAAAAAG
AATTCCCCCAAAAATGAAAGGAAAGGGGAATGATGGGCTTACCTAAATGT
GAGCCAGGTTTTGGTTTTGGGTTTTTTGGGTTTTTTGGGGGGGGGGGGGA
ATTTTTAAAACTCGGGGGTTTNGAGACCTTTTAGGGGATCGGGGAGTTTT
CTTTTTAATTTAGCAGAAAAATTTTTTTTGGGTGAATAAAATAAATATCT
CCCCCAACATTTGTGTCTACTCTATTGGGGGGGTGTTTTTGGTTTTAACA
ATAATCCCGGAAAATTTTTTTTATGGGGGGGNCGCCCCTCTTGTTGTGGT
GGTTTTTTCCCCCCCCCGCGGGGTGTCATCTTTTAGGTGTCTTTGGGTGC
TCCTACTTAATTAAACGGGGTCGTCGCATACTTCTTTTTTTTTCACAAAA
TTTTTTTTTTTTTTTCCCGTTTGTTATTTTTCTTTTTCTACCCCTTCTTG
TGTCTTTCTTTTTGATGTGACGACATTTAACAACACTTT

TTTTCTCCGATGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAGTCTGATTAGTATTA
GAATTTTATACATGTAAATAAGACATGAATTGGATTACCTTATAATCCTC
CTTGGAGCTTTCTGGCCTCTTGTTGCCTATGAAAACTAACATTCACATAG
GTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCTGTAGG
GGGGGATAGTTNNNTNNNNNNNNTNNNNNNNNNTTTTTTGTGGTTGTTTT
TGTTGGGGCCGGGTGGGGNTTTTTTTTTTTTTTGGGGTGGGGTTTTTTGT
TTNNGTTTTCGCCTTTCTTCCTTTTTTGTTTGGCCCCNGCCTCGTTCGCG
CTTGTTTTCTTTTTTTTGTTGTTGCCCNCCTTTCCGTGTCTTTCCCTTTT
TTTCGTTCCTTGGTTCGCTTGTCTTTTTTTTTGCCCCCCTCTTTTTTTCT
TGTGTCCCTCTCTCTCCTTTTTTTGCGTCCCGCTTTTTCTCTCTGCCCCT
TTTTTTGTCTCTCTCGTCTTTTTTTTTTGTTTCTTGTCCTTTCTTTTTTT
CTTCCTCGCCCCGTTTTTATTTTTTTTTCTCCCCCTCTCAAATTCTTTTC
TATTTTTTTTATTATTTGCGCTTTTTTTGCCCCGGCGACGATTTCATCCG
TCCTATATTCGCCTAAATGTTTAATTTTTATATTCTTATCACTCATCTTC
AACCGATCCCCACACCCTTATATCTTTTCCCATTTAAATAACTCCGN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no496_j05.b1 MSMg01no496_j05.b1 CHROMAT_FILE:
MSMg01no496_j05.b1 PHD_FILE: MSMg01no496_j05.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:21:57 2005
         (152 letters)



>mm_chr5_30223695_30224246
          Length = 552

 Score =  259 bits (134), Expect = 5e-74
 Identities = 143/146 (97%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcagtcttgctggaacccaagcactgacatcaggtcatgctctcgagctctttgag 64
           |||||||||||||||||||||||||||||||  |||||||||||||||||||||||||||
Sbjct: 205 gaattcagtcttgctggaacccaagcactgatgtcaggtcatgctctcgagctctttgag 264

                                                                       
Query: 65  gttagaatcatgtttagtggcttctatccttaaagcatcaagatcagtgaaattatgaat 124
           ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 265 gttagaatcatgtttagtggcttttatccttaaagcatcaagatcagtgaaattatgaat 324

                                     
Query: 125 ctgaaaaagtgtagtagatgatggca 150
           ||||||||||||||||||||||||||
Sbjct: 325 ctgaaaaagtgtagtagatgatggca 350


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: 7
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: 152
Length of database: 552
Length adjustment: 8
Effective length of query: 144
Effective length of database: 544
Effective search space:    78336
Effective search space used:    78336
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= MSMg01no496_j05.g1 MSMg01no496_j05.g1 CHROMAT_FILE:
MSMg01no496_j05.g1 PHD_FILE: MSMg01no496_j05.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:21:57 2005
         (173 letters)



>mm_chr5_30389393_30389965
          Length = 573

 Score =  257 bits (133), Expect = 2e-73
 Identities = 136/137 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   agtctgattagtattagaattttatacatgtaaataagacatgaattggattaccttata 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 318 agtctgattagtattagaattttatacatgtaaataagacatgaattggattaccttata 259

                                                                       
Query: 61  atcctccttggagctttctggcctcttgttgcctatgaaaactaacattcacataggttg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 258 atcctccttggagctttctggcctcttgttgcctatgaaaactaacattcacataggttg 199

                            
Query: 121 tgtgtgtgtgtgtgtgt 137
            ||||||||||||||||
Sbjct: 198 cgtgtgtgtgtgtgtgt 182


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: 23
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2
Number of HSP's successfully gapped: 1
Length of query: 173
Length of database: 573
Length adjustment: 8
Effective length of query: 165
Effective length of database: 565
Effective search space:    93225
Effective search space used:    93225
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)


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