BAC Information

Click to search

BAC

Clone NameMSMg01-112E23
Chromosome9 (Build37)
Map Location 52,179,680 - 52,359,823
singlet/doubletdoublet
Overlap geneLOC100042876
Upstream geneLOC100042854, LOC640374, LOC668070, Arhgap20, LOC629554, LOC100043409, Fdx1, EG629557, Rdx, 9830163H01Rik, Zc3h12c
Downstream geneAI593442, Gm1715, Ddx10, Exph5, Kdelc2, 4930550C14Rik, Atm, Npat
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-112E23.T7 (MSMg01no112_e23.b1)MSMg01-112E23.TJ (MSMg01no112_e23.g1)
ACCAG324753AG324754
length718729
length of high quality
(start - end)
343 (74 - 416)173 (74 - 246)
definitionCHROMAT_FILE: MSMg01no112_e23.b1 PHD_FILE: MSMg01no112_e23.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:17:26 2005CHROMAT_FILE: MSMg01no112_e23.g1 PHD_FILE: MSMg01no112_e23.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:17:26 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(52,179,680 - 52,180,022)(52,359,651 - 52,359,823)
sequence
CAAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCTGCAAGAGAGACCGCGG
AATTCCTAAGTTTTCTCCAAAATCAAGAATGTCTTTCATGTGGTTGAGTT
GTATGCCAGATATTTTAAACACATATTTTCTGATGGTATCAACTACCAAG
AATGATTTCTTGAGACTATTTATGTTTTTGCTGTATTTGAAGTCATGCTA
CATTTTTCAATTTAAATGTAATTCAATTCCATTTAAAATTGCTTTGGGCA
ACTAACTGCTCTTATGGACAACATAGAATTCAGCCATCACTGTAGAACAA
GACCTTTATATTCTCAGTTCACTCCTGTAGGATATTTCGCTCTATTTTCG
TCAACAAAGACTTAATAAAATATTACATTACAAAAATTCCTTAAGTTTAT
TTAATATTTATTTAGTATCAATGCTTCATTTTCTCTATCATTTGGTGTAT
CTATTCTCCAAGGAGCCTCATCAGACTTTCAAACATCCTCATCAGACTTT
TTCACATCCATGATTTTCTAGAAAAATCAACCAGTTTGAAAAGAAAACTT
TAATACTGGTGTATCACTTAGGAATATGACATTCATATTTAAACGCTCTG
GTCTGGCCAAGGAAAGAGAATCCCCATGTTTGTCCATGATATGATCTTCT
AGTCAAGGACCTCTGTTTAATACAACGCCCCATACACCCTTTTATTTCGC
TAAATGTACCTTCCCTTA
CGATGCAGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXTTAAATTTATACTCTGTTTTAAGAGGT
GAAGATTTATGATTAAAGGATAAAAGCTTTTGTCAGTTTTGGTTAAGCAG
GTTGTTTCTAATAATATTTGGAGATATGATTGTACTGGGTAGGGCAAAGT
GACAGTGCTGTGAAAATTAAAAGAAGTTAGAAAATCTAGATTTGTCAGAA
GGTTCGCAGCCTTAATTCTGCCTGGCCTCTTTCCTACTTGGATCAGAAAA
GTCCTTAGAGGAGGACCTTCAGAATCATGGACACTATACAGACTTGAGTA
CATTTTTCTGGAGGAGGGGCTTCACAGCCATGGAATCCATAGAGACTCTA
GTGCATTGACATTTCCTTTCCAGAATGAAAATTGTACCCCCGTGGTAGAA
CTCAACCCTTGTTCTTGCAGCTAGGAAGGATTTCTTGCTCTTCTGGGATC
TTCAAGAAATTTTCTGGACGATTTCTTTCTCCTCTTCCAGAATAAACGAT
ACTTCTGGAAGGTGTCATTTTTCCCCTTGTAGGAAAGTATTTACCCATAA
GTCCAATGGCCTGTAGTAGCACGTGAATTCTTAAAGGGTCCCTTCTGTAC
CCCCTGGAGTCAAAGCTTTCCAGTCTAATGTCTTTAGCTCAGAAAACAAC
CTTTACGTTGTACCCAGTCCCTAGCTTTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no112_e23.b1 MSMg01no112_e23.b1 CHROMAT_FILE:
MSMg01no112_e23.b1 PHD_FILE: MSMg01no112_e23.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:17:26 2005
         (343 letters)



>mm_chr9_52179480_52180222
          Length = 743

 Score =  632 bits (327), Expect = 0.0
 Identities = 339/343 (98%)
 Strand = Plus / Plus

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

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

                                                                       
Query: 121 catgctacatttttcaatttaaatgtaattcaattccatttaaaattgctttgggcaact 180
           |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 catgttacatttttcaatttaaatgtaattcaattccatttaaaattgctttgggcaact 380

                                                                       
Query: 181 aactgctcttatggacaacatagaattcagccatcactgtagaacaagacctttatattc 240
           |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 aactgctcttatggacaatatagaattcagccatcactgtagaacaagacctttatattc 440

                                                                       
Query: 241 tcagttcactcctgtaggatatttcgctctattttcgtcaacaaagacttaataaaatat 300
           |||||||||||||| |||||||||||||||||||||| ||||||||||||||||||||||
Sbjct: 441 tcagttcactcctggaggatatttcgctctattttcgccaacaaagacttaataaaatat 500

                                                      
Query: 301 tacattacaaaaattccttaagtttatttaatatttatttagt 343
           |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 tacattacaaaaattccttaagtttatttaatatttatttagt 543


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: 20
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: 343
Length of database: 743
Length adjustment: 9
Effective length of query: 334
Effective length of database: 734
Effective search space:   245156
Effective search space used:   245156
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= MSMg01no112_e23.g1 MSMg01no112_e23.g1 CHROMAT_FILE:
MSMg01no112_e23.g1 PHD_FILE: MSMg01no112_e23.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:17:26 2005
         (173 letters)



>mm_chr9_52359451_52360023
          Length = 573

 Score =  335 bits (173), Expect = 1e-96
 Identities = 173/173 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   ttaaatttatactctgttttaagaggtgaagatttatgattaaaggataaaagcttttgt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 373 ttaaatttatactctgttttaagaggtgaagatttatgattaaaggataaaagcttttgt 314

                                                                       
Query: 61  cagttttggttaagcaggttgtttctaataatatttggagatatgattgtactgggtagg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 313 cagttttggttaagcaggttgtttctaataatatttggagatatgattgtactgggtagg 254

                                                                
Query: 121 gcaaagtgacagtgctgtgaaaattaaaagaagttagaaaatctagatttgtc 173
           |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 253 gcaaagtgacagtgctgtgaaaattaaaagaagttagaaaatctagatttgtc 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: 9
Number of extensions: 2
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: 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)