BAC Information

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BAC

Clone NameMSMg01-334J08
Chromosome1 (Build37)
Map Location 172,052,868 - 172,121,414
singlet/doubletdoublet
Overlap geneUap1
Upstream geneEG383613, Nuf2, Rgs5, Rgs4, LOC100039960, 1700084C01Rik, Hsd17b7, Ddr2, LOC100040571
Downstream geneUhmk1, Sh2d1b2, EG622708, Sh2d1b1, EG665574, 1700015E13Rik, Nos1ap, LOC100040002, LOC640532, Olfml2b, Atf6, Dusp12, Fcrlb, Fcrla, LOC100040778, Fcgr2b, Fcgr4, Fcgr3, 1700009P17Rik, Sdhc, Mpz, Pcp4l1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-334J08.T7 (MSMg01no334_j08.b1)MSMg01-334J08.TJ (MSMg01no334_j08.g1)
ACCAG450043AG450044
length723729
length of high quality
(start - end)
680 (44 - 723)537 (77 - 613)
definitionCHROMAT_FILE: MSMg01no334_j08.b1 PHD_FILE: MSMg01no334_j08.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:22:03 2005CHROMAT_FILE: MSMg01no334_j08.g1 PHD_FILE: MSMg01no334_j08.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:22:03 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(172,121,028 - 172,121,414)(172,052,868 - 172,053,404)
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXATCCGCGGAA
TTCCACGTTTACCCATTTTGCCCACAGCATAAACGCTTTAACTGCTTCCC
AGACTTCATGTTGTGTCCTTTGTGTACTGCTCTCCAGAGTACCGCATCCA
GGGGGGAATGGGGCCAGTTATGCACAGCCCCTGGATAGCCACGTGGTCCC
CGGCAGCTGGCCAACCAGAGACTTCCCCCATGGCAGCGGTTATCAAGGAA
AGCATTGACTTGGGCTCTGTTGTCATCAGGGCAGGGAGCATGGTGGCTTG
CAGGCAGACATGGTGCTGGAGAGTGACTGATATCTCTGCATCTGGATTCA
TTGGCAGCAGGAAGAGAAAGAGCCCTGGGCCTGGCTTGAGCTTCTGAAAC
CCCAAACCCACACTTAGTGACACACCTCTTTCAACAAGGCCACACCTCCT
AATTCCTGTCAAGTAGCGCCATTCCCTAGTGACTAAGTATTCAGATATAT
AAGTCTATATGTGGCCATTCCTATTTAAAGTAGCACTGTAAACTTCGATA
ATCCAATTTCAAAGTCAGGTCTAAATACCTCGGGGAAGAGTTTTGTCTCA
GATTTTAGCAATATCGCATAGCTAATAGCTATATAAATACTCCAAGGAGA
ACCCATTACCTGGATGAAAATCTTGGTAGTAAGTGATCATTAATTCAAAA
AGATATTTTACAGTTAATGTAGG
NCGAATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXTCCTTAATAGGGACGGGTTTTCGT
TTTCTCGCTCTCTTGCTTCTTACACTCCTGCTCCTGAAGATGTAAGCAAT
AAAGTTTTGCCGCAGAAGATTCTGGTCTGTTGCGTTCTTCCTGGCCGGGC
GTGAGAACGCGTCTAATAACAGCCTTCGTTTAGAACAATGCCACATATAG
TATATGACAGTTTAAAGAGTGCCTTCGCAGACATGACTTCATCCAGTCCT
CAGACAGCCCCAATATTCACTCAATGCAGATATTAATATCCTCATGTTTC
ACATAAGGAAAGGGGGGCCTGAGAAGCAGTAGCTCATTTGAAGATTTTGT
CCAGGGAATGGCAGCATCTCAGCTTATGTCACAGTTCTTACACTGTTCAA
TACCCACTCTGCCCATTGGGTGACAATGGCAAACCTTCCCAGAGCCTCTA
GACTGGACAGTCATCTGATTCTAGTGACCACACCAGTTGCTTTCCTTGCT
TTCTGCTTTGTCTTTTCTCGCCTAGCAGACCTCCAGAGATGAAGGGTGAA
ATAAAACAAAACCAAGAAACACGGAATCTTAACTTGGCTGTGGGCTTCCT
GATCAAAATGATGGTTACAAAAAGTGCTGGCACAGTTTGTTTTGCAGTAT
TATCCTAAAGACTATGACCTTTCTTCTGT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no334_j08.b1 MSMg01no334_j08.b1 CHROMAT_FILE:
MSMg01no334_j08.b1 PHD_FILE: MSMg01no334_j08.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:22:03 2005
         (680 letters)



>mm_chr1_172120335_172121414
          Length = 1080

 Score =  748 bits (387), Expect = 0.0
 Identities = 387/387 (100%)
 Strand = Plus / Minus

                                                                        
Query: 294  tgcatctggattcattggcagcaggaagagaaagagccctgggcctggcttgagcttctg 353
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1080 tgcatctggattcattggcagcaggaagagaaagagccctgggcctggcttgagcttctg 1021

                                                                        
Query: 354  aaaccccaaacccacacttagtgacacacctctttcaacaaggccacacctcctaattcc 413
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1020 aaaccccaaacccacacttagtgacacacctctttcaacaaggccacacctcctaattcc 961

                                                                        
Query: 414  tgtcaagtagcgccattccctagtgactaagtattcagatatataagtctatatgtggcc 473
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 960  tgtcaagtagcgccattccctagtgactaagtattcagatatataagtctatatgtggcc 901

                                                                        
Query: 474  attcctatttaaagtagcactgtaaacttcgataatccaatttcaaagtcaggtctaaat 533
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 900  attcctatttaaagtagcactgtaaacttcgataatccaatttcaaagtcaggtctaaat 841

                                                                        
Query: 534  acctcggggaagagttttgtctcagattttagcaatatcgcatagctaatagctatataa 593
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 840  acctcggggaagagttttgtctcagattttagcaatatcgcatagctaatagctatataa 781

                                                                        
Query: 594  atactccaaggagaacccattacctggatgaaaatcttggtagtaagtgatcattaattc 653
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 780  atactccaaggagaacccattacctggatgaaaatcttggtagtaagtgatcattaattc 721

                                       
Query: 654  aaaaagatattttacagttaatgtagg 680
            |||||||||||||||||||||||||||
Sbjct: 720  aaaaagatattttacagttaatgtagg 694


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: 680
Length of database: 1080
Length adjustment: 10
Effective length of query: 670
Effective length of database: 1070
Effective search space:   716900
Effective search space used:   716900
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= MSMg01no334_j08.g1 MSMg01no334_j08.g1 CHROMAT_FILE:
MSMg01no334_j08.g1 PHD_FILE: MSMg01no334_j08.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:22:03 2005
         (537 letters)



>mm_chr1_172052668_172053604
          Length = 937

 Score = 1038 bits (537), Expect = 0.0
 Identities = 537/537 (100%)
 Strand = Plus / Plus

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

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

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

                                                                       
Query: 181 acagtttaaagagtgccttcgcagacatgacttcatccagtcctcagacagccccaatat 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 acagtttaaagagtgccttcgcagacatgacttcatccagtcctcagacagccccaatat 440

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

                                                                       
Query: 301 cagtagctcatttgaagattttgtccagggaatggcagcatctcagcttatgtcacagtt 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 cagtagctcatttgaagattttgtccagggaatggcagcatctcagcttatgtcacagtt 560

                                                                       
Query: 361 cttacactgttcaatacccactctgcccattgggtgacaatggcaaaccttcccagagcc 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 cttacactgttcaatacccactctgcccattgggtgacaatggcaaaccttcccagagcc 620

                                                                       
Query: 421 tctagactggacagtcatctgattctagtgaccacaccagttgctttccttgctttctgc 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 tctagactggacagtcatctgattctagtgaccacaccagttgctttccttgctttctgc 680

                                                                    
Query: 481 tttgtcttttctcgcctagcagacctccagagatgaagggtgaaataaaacaaaacc 537
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 tttgtcttttctcgcctagcagacctccagagatgaagggtgaaataaaacaaaacc 737


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: 25
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: 537
Length of database: 937
Length adjustment: 10
Effective length of query: 527
Effective length of database: 927
Effective search space:   488529
Effective search space used:   488529
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)