BAC Information

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BAC

Clone NameMSMg01-400O04
Chromosome4 (Build37)
Map Location 132,882,367 - 133,085,305
singlet/doubletdoublet
Overlap geneWdtc1, Slc9a1, 4732473B16Rik, 2300002D11Rik, 1810019J16Rik
Upstream geneTrspap1, Rcc1, Snhg3, Phactr4, Med18, Sesn2, Atpif1, Dnajc8, Ptafr, Eya3, Xkr8, Smpdl3b, Rpa2, BC013712, LOC100039917, Ppp1r8, Stx12, OTTMUSG00000010099, BC008163, Fgr, Ahdc1, LOC100041932, Wasf2, Gpr3, Cd164l2, Fcnc-ps, Map3k6, Sytl1, D4Ertd196e, LOC100041990, LOC100042018
Downstream geneNudc, Nr0b2, Gpatch3, Atpbd1b, Sfn, Zdhhc18, LOC545683, Pigv, Arid1a, Rps6ka1, 4930429E23Rik, LOC100042151, Hmgn2, Dhdds, Lin28, Aim1l, Cd52, Ubxd5, Sh3bgrl3, Ccdc21, EG665186, Catsper4, Cnksr1, Zfp593, Grrp1, Pdik1l, Trim63, Slc30a2, Extl1, LOC434166, Pafah2, Stmn1, Paqr7, 2610002D18Rik, 2410166I05Rik
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-400O04.T7 (MSMg01no400_o04.b1)MSMg01-400O04.TJ (MSMg01no400_o04.g1)
ACCAG500401AG500402
length793781
length of high quality
(start - end)
247 (78 - 324)371 (71 - 441)
definitionCHROMAT_FILE: MSMg01no400_o04.b1 PHD_FILE: MSMg01no400_o04.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:14:20 2005CHROMAT_FILE: MSMg01no400_o04.g1 PHD_FILE: MSMg01no400_o04.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:14:20 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(132,882,367 - 132,882,612)(133,084,935 - 133,085,305)
sequence
ATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGACTCAGGCGGAA
TCTGGTAGATGCTGCCTGAAAACTAAGTATTGGCTGGGATAAATAATTTC
AAGAATTTTATCAAAAATTTTAATGCGCTGGACTTGGATTAGTTGAATCT
TAGTTATACTAATTTATTCTTATGTCTTAGAAGAAATCACAGAAGACAGC
AGGACATTAACCATAGGGAAGGATGTGGCAGCATGGAGTCACTAGAGAAG
AGAACATGTACTCTTCACTCTGAGGCGGGATGGTGAATGCCACACCCTGA
CTTTCACAATCAACACTGGAAGATTCTTTGTAGCTAATTTGTTCATTTGT
TCATAGAAAATGATAGCCCAATAAATAAAGACTTTCTCTACCTCGAGGAC
AAAGGTTGGCAGGGTACGAACTGTCATTAGGATGCTAAGGCCACCCCTGA
CAGACATCCATGAGAGGAGGAGCAAACGCATAGTACACAGCGGCGACACA
GAGGAAAACACATGACATAATGCTCAGACTGAAATGTGAGCTGTGCTTGT
GTGCAGATGTTACACCTCTCTGAAGGCCTTCTCCCTCGGGCCTATATTGG
CTAGTATGTGTTCTTTTAACCCTATCCTGATTGTTAGTTTTGGGGTTAAG
ACCTTCTAGGAAACTTTCTTCTATTTTTCAAATATACCTTCGACCTTTCC
TACATTTGATTCCCCGCACCCTTCTCGCTTCTACTGATGGCCAGAATTCA
TTCTTTTGGAGATTGGCCCCCCAGAACCTCATCCATCCCCCCT
TACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXACTCTGTAGACCAGGGTGGCCTCAAACTCA
GAAATCTGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCATGTGCC
ACCACTGCCCAGCAGTGTGTATTTTTCTTAAAGACAAGGTCTCTACCCCA
TCCTGTCCTGGAACTCTTGAGAGACCTTTTTCCCAGCCTCTGGAATTCTG
AGGAACCCTTGTGACTAGCCAAATCCTTGTGCTTTGGGCCCTTATTAAGG
CCAGACCCGGGAGCTGCTCTGTCTTTTAGTCATAGGGTAGAGGCGTTTAC
AGACCCGATTGTTTAAGAGAAGTGCCAGCTGGCTAAGGGCAAGCCCCACA
AAGCCCAATCCTTCTCCTGTAGCTAGAACTTCCCTACTCAGGCCCACCTA
CCGTCCTGGCTGAGGCCAGAGCCCACGCATGGTCTCATGGCCAGTGTCGG
GGGCAGCAGCACGGGCCGTACAGCGTGCTGAGCGCCCCTCGTACGTCTGT
CCGCGTAACCGGCTCTTGTGGTCACTAATACGCATGACGTCCCGTTCTAT
GTCTTCTTCGTCCGCTTCGTCATCTGCGGGTATACTCGGCTGACGTCGTC
AACCAGATCGAAAATCTGTTTTTCGTCTTCATCAATTTTCTTCTTCTCTT
TTTTCTTTCAGATCTTCCGTTCGTTTTTTCTTTGAGATATTTTTCATTTT
TTTCTACATTTTTTCTTGTTTTTCTTTCTTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no400_o04.b1 MSMg01no400_o04.b1 CHROMAT_FILE:
MSMg01no400_o04.b1 PHD_FILE: MSMg01no400_o04.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:14:20 2005
         (247 letters)



>mm_chr4_132882167_132882813
          Length = 647

 Score =  460 bits (238), Expect = e-134
 Identities = 244/246 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   tattggctgggataaataatttcaagaattttatcaaaaattttaatgcgctggacttgg 60
           |||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 201 tattggctgggataaataatttcaagaattttatcaaaaattttaatgagctggacttgg 260

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

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

                                                                       
Query: 181 gtactcttcactctgaggcgggatggtgaatgccacaccctgactttcacaatcaacact 240
           | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 ggactcttcactctgaggcgggatggtgaatgccacaccctgactttcacaatcaacact 440

                 
Query: 241 ggaaga 246
           ||||||
Sbjct: 441 ggaaga 446


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: 10
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: 247
Length of database: 647
Length adjustment: 9
Effective length of query: 238
Effective length of database: 638
Effective search space:   151844
Effective search space used:   151844
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= MSMg01no400_o04.g1 MSMg01no400_o04.g1 CHROMAT_FILE:
MSMg01no400_o04.g1 PHD_FILE: MSMg01no400_o04.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:14:20 2005
         (371 letters)



>mm_chr4_133084642_133085412
          Length = 771

 Score =  687 bits (355), Expect = 0.0
 Identities = 367/371 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   actctgtagaccagggtggcctcaaactcagaaatctgcctgcctctgcctcccaagtgc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 664 actctgtagaccagggtggcctcaaactcagaaatctgcctgcctctgcctcccaagtgc 605

                                                                       
Query: 61  tgggattaaaggcatgtgccaccactgcccagcagtgtgtatttttcttaaagacaaggt 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 604 tgggattaaaggcatgtgccaccactgcccagcagtgtgtatttttcttaaagacaaggt 545

                                                                       
Query: 121 ctctaccccatcctgtcctggaactcttgagagacctttttcccagcctctggaattctg 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 544 ctctaccccatcctgtcctggaactcttgagagacctttttcccagcctctggaattctg 485

                                                                       
Query: 181 aggaacccttgtgactagccaaatccttgtgctttgggcccttattaaggccagacccgg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 484 aggaacccttgtgactagccaaatccttgtgctttgggcccttattaaggccagacccgg 425

                                                                       
Query: 241 gagctgctctgtcttttagtcatagggtagaggcgtttacagacccgattgtttaagaga 300
           ||||||||||| |  |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 424 gagctgctctgccagttagtcatagggtagaggcgtttacagacccgattgtttaagaga 365

                                                                       
Query: 301 agtgccagctggctaagggcaagccccacaaagcccaatccttctcctgtagctagaact 360
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 364 agtgccagctggctaaggggaagccccacaaagcccaatccttctcctgtagctagaact 305

                      
Query: 361 tccctactcag 371
           |||||||||||
Sbjct: 304 tccctactcag 294


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: 18
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: 371
Length of database: 771
Length adjustment: 9
Effective length of query: 362
Effective length of database: 762
Effective search space:   275844
Effective search space used:   275844
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)