BAC Information

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BAC

Clone NameMSMg01-398H10
Chromosome6 (Build37)
Map Location 28,946,287 - 29,029,960
singlet/doubletdoublet
Overlap geneLep
Upstream geneGrm8, 6530409C15Rik, AA407452, LOC100041304, LOC384360, Gcc1, Arf5, Fscn3, Pax4, LOC100041350, Snd1, Lrrc4, LOC100041367
Downstream geneRbm28, D330027H18Rik, Impdh1, 2310016C08Rik, AI507611, BC048651, Calu, Opn1sw, 4921511K06Rik, Flnc, Atp6v1f, EG668210, Crim2, Irf5, Tnpo3, Tspan33, Smo, 4631427C17Rik, D330017J20Rik, 1700023L04Rik, 1700080G18Rik, Nrf1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-398H10.T7 (MSMg01no398_h10.b1)MSMg01-398H10.TJ (MSMg01no398_h10.g1)
ACCAG498559AG498560
length784781
length of high quality
(start - end)
480 (67 - 546)173 (69 - 241)
definitionCHROMAT_FILE: MSMg01no398_h10.b1 PHD_FILE: MSMg01no398_h10.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:11:12 2005CHROMAT_FILE: MSMg01no398_h10.g1 PHD_FILE: MSMg01no398_h10.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:11:12 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(28,946,287 - 28,946,766)(29,029,788 - 29,029,960)
sequence
ATXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTCCAGAGGATCCGCGGAAT
TCTATGGTTTTGGTGATATAAAATTAATAAAGAAAATTAATAGCATTCCT
CAAACAACAAGAATTTTATAATTACAACGGAAGGGGAAAACCGATTGCAA
TAGCAATAAAGACGCAAGCATCATATGAGGAATTTACAACATTCCTGAGG
GTCACAATAGAAGGAGCTTCAAAATAGAAATGAAAAGTCTCATTCTTTAC
TTGGAAATTGCTTATCCAAAGTATTACAACGATGCTCATTCTTCTTAAAT
TATGCGTGATATTTAATTAACTGGGTATCTTTTATTCTTGGACTCTGACA
GGTTTATTCTTAAGTGTTTGTGAAAAAAAATACAAACACTCACAGATATC
CAGGAAATTTAGTCACCTCAGAAGAGATCAGCTCACTTTTTTGTGAAAAC
ATAATTAAAATAAAGAAGTACTGGAAAACATTCAGTCAGAGCAGTAGAGG
GAATGAGGCGTTCAGAAGGAGAGTCAGATTAATACAGGAAGTTAGCGTTC
CCTGAAATGGCATCTCACCGGAGCGGCTAAGACTAGCTGTCCAGTATGGA
AGGCTACCAAAGGTGGGGGTGCACTCTGGAGAACAAGCGACCCTGACTTT
CGCCTTTACATCGGAAAAGAGGTAACATTTTATAACTTGTAAGCGAATGT
TTTCCATCTTCCCACAAGATAAACCGGGTACCCCCTTTTTACGGGGGCAT
AATTATGTTGACAACTTTTGCATCCCCCCCCTCC
ATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXTACCGCGACATTCCATTGGGGCGGATGAAGGGTGGCTGAAAAGG
GCTAAAGCTCTCAAGATGGGGGATGGGGAGGAGCCTATTCCAGGCTTCAG
CCACATCACAGTGGGTAAGGTCTAAAAAGAGCAAAGTGTCTTACTCCATA
GTGATCTAAGTGAGACAGGAGACAGGAATCCTTTCCCTCCACTTTTGTTT
TGTGGGTTTCTCTTCCTGCTTTAACATCATAGGATGGCCACCAAGCGGAC
ACTTCACACTTTGGTAGTTTGCCACCAGGGCCACCCCGCCCACCGCATGC
TTGATTCCCGCCCTCCCTGCCGCTCTCTTTCCCTGTCAACTTCTGGTTTC
TCTTCTGCTCCCCCTCTCAGCTGGCTCTCCCTGCTCTCTCCTTGTTCCAT
TCTCTTCACCTCTGTTCTTTCCTCTGCTCTCCTCCTTTTCTCTATTTCTT
CTTTCTCCCTCTCGTTTTCTTGTTTCTCTTTTCTTTTCTTTCTCTCTCTC
TTCCTTCCCCCCTTACCCTACCCACTTCTCCCCCATCTCCCTCTTTTCTT
CTCTCTTCTCTCCACTTATTCATTCTCTTCTTTCACCCTCTACACTTTTT
TTTTTTCTTTTCTTTCTCCCTCTCTCTTCTTTTCTTTTCTTCTTTCCCTC
TTTTCCATCTTCCTCTCTCCTTCGCCTTATTCTTACATCATCCCTTTCAA
CTCACATCCCTTTTCCTCCCTCTTTTCCCTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no398_h10.b1 MSMg01no398_h10.b1 CHROMAT_FILE:
MSMg01no398_h10.b1 PHD_FILE: MSMg01no398_h10.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:11:12 2005
         (480 letters)



>mm_chr6_28946087_28946966
          Length = 880

 Score =  905 bits (468), Expect = 0.0
 Identities = 477/480 (99%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  acggaaggggaaaaccgattgcaatagcaataaagacgcaagcatcatatgaggaattta 120
           ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 acggaagggaaaaaccgattgcaatagcaataaagacgcaagcatcatatgaggaattta 320

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

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

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

                                                                       
Query: 301 tttgtgaaaaaaaatacaaacactcacagatatccaggaaatttagtcacctcagaagag 360
           |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 tttgtgaaaaaaaacacaaacactcacagatatccaggaaatttagtcacctcagaagag 560

                                                                       
Query: 361 atcagctcacttttttgtgaaaacataattaaaataaagaagtactggaaaacattcagt 420
           |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 atcagctcacttctttgtgaaaacataattaaaataaagaagtactggaaaacattcagt 620

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


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: 24
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: 480
Length of database: 880
Length adjustment: 10
Effective length of query: 470
Effective length of database: 870
Effective search space:   408900
Effective search space used:   408900
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= MSMg01no398_h10.g1 MSMg01no398_h10.g1 CHROMAT_FILE:
MSMg01no398_h10.g1 PHD_FILE: MSMg01no398_h10.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:11:12 2005
         (173 letters)



>mm_chr6_29029588_29030160
          Length = 573

 Score =  319 bits (165), Expect = 5e-92
 Identities = 171/173 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   ccattggggcggatgaagggtggctgaaaagggctaaagctctcaagatgggggatgggg 60
           |||| ||||||||||||||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 373 ccatcggggcggatgaagggtggctgaaaagggctaaagctcacaagatgggggatgggg 314

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

                                                                
Query: 121 tcttactccatagtgatctaagtgagacaggagacaggaatcctttccctcca 173
           |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 253 tcttactccatagtgatctaagtgagacaggagacaggaatcctttccctcca 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: 8
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: 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)