BAC Information

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BAC

Clone NameMSMg01-273E02
Chromosome6 (Build37)
Map Location 89,374,767 - 89,487,234
singlet/doubletdoublet
Overlap geneChchd6
Upstream geneEefsec, Ruvbl1, Sec61a1, 4933428M03Rik, Mgll, Abtb1, Podxl2, LOC100043146, Mcm2, Gpr175, 4933427D06Rik, Gm1965, LOC100043153, LOC100043159, EG624483, EG624491, LOC665547, EG624537, Gm839, 4930512J16Rik, Plxna1
Downstream geneTxnrd3, V1r-ps1, V1rb7, V1rb9, V1r-ps2, V1r-ps3, V1ra6, V1ra5, V1rb4, V1r-ps4, V1ra2, V1rb8, V1ra4, V1ra3, V1rb2, V1rb1, V1ra1, LOC625050, V1ra7, V1ra8, V1rb3, LOC100043191, V1r-ps5, V1ra9, BC048671, Chst13, Uroc1, Zxdc, Ccdc37, Klf15
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-273E02.T7 (MSMg01no273_e02.b1)MSMg01-273E02.TJ (MSMg01no273_e02.g1)
ACCAG412310AG412311
length708710
length of high quality
(start - end)
662 (45 - 706)286 (75 - 360)
definitionCHROMAT_FILE: MSMg01no273_e02.b1 PHD_FILE: MSMg01no273_e02.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:12:35 2005CHROMAT_FILE: MSMg01no273_e02.g1 PHD_FILE: MSMg01no273_e02.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:12:35 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(89,374,767 - 89,375,424)(89,486,949 - 89,487,234)
sequence
AATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCTGAGAGCTGAGGAGTGAAAGAAGGCTCATCATAGGGCTTTTAGTCT
CATTTGCTCATGGTCTATCCCCAGAGCCTGTGAGAGGGCCTGATACAAGA
ATTGCTGAATAAATTAAAACCAAGGCCAGAACCATAAGAGTGATGCACAG
GCTAGTTAGGAGGAAGACAGTTCCTAAGCTCCAGCTCTGCACTGGGTCTG
TACTCATAGATTTAGCAGGCTACTGCAGACCAACTTGGGGTAGCACATGG
TATGACCAGGGCACAGAAGACTAAGGCATGGCTTGGGGAGGGCAGGCAGA
TTGAAGCTCATGTACTTGGATTCCTGCCCAAGTGGTGGGAGTATTTTAAC
ACAAGCTGTGGGAGGATGCAAGAGGCAACAGTCACATGTGTGCTGGCTTT
AGCAGCAATATACACAGAATCAATATCCAATGGGGGTGAGAAATATGTCT
CCTCAGAAGGTTCACTGGTCTTCCTTGGCCAGGCACTATTGTAGGGACTG
CCCAGCAGGCCAATTTGATTCCCAGAAAGCTCAGAAGAGTTATTCTGAGG
TAAGAACTTAGCAGATGAAGAAACTGAGGAGGCCCAGAGAGGCAAAGGGA
CAACCAAGGTGAAAGGACAGGAGGTCAAAGAGCAGGGTGGGACAGGCCAG
AAATGGAT
AATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXTAACTAGAGTCTGATCTCCCCAAGGC
ATGGAGGCCCCAAATCAGCACTTGAGGTTAAAGCCAAACATGGTGCAGCT
AGCTGTGGGAGGCTCTGGGAAGGAAGTCTCGTTAAGCAAGTTGGGAGAAT
CCCCGTTTCAGCAGCAAATCAGACCAGGTGTGTTTTCAGCAGAGTTTTCC
TTAGCAGATCAGTACTTTGTTCAGCAGTTGGTTAGAGCAGGTGGAATCGC
AGCAGGGTTTGGGGATAGGTTGAAGGAAGAGTTCTGATGACCAAATGCTA
GACTCGGGAGTGTGTTAAAATCGCCCTCTAACAGAGCCAGGGACTGGGGC
TGTTGATGAACCTTTTCTGCTTGCACAGTATGCAGTACCTCACACTCAGG
CTCTGCCTGCCTGAGAGCCCTGCAAGGCTCCCTTAGCTCATCTCTAAGTC
TTTGTTCATTGAGATGATATCAACATTCTCCATTTCCAAATATAAAACAA
AATTTCTAGTGTGGTAGTGCATGCTGTTAATCCAGTGCTTGGGAGAGCAA
AACAGAGAGAGTAATCTATGTGTTTAAAGGTTAGTGCCCCAAAGAAAGGA
CAATGCTTTGATTTTACTGGAGTAGATAATTATTCTGGTTATAGATTTGC
CTTTCTTAAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no273_e02.b1 MSMg01no273_e02.b1 CHROMAT_FILE:
MSMg01no273_e02.b1 PHD_FILE: MSMg01no273_e02.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:12:35 2005
         (662 letters)



>mm_chr6_89374563_89375624
          Length = 1062

 Score = 1241 bits (642), Expect = 0.0
 Identities = 654/658 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattctgagagctgaggagtgaaagaaggctcatcatagggcttttagtctcatttgct 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattctgagagctgaggagtgaaagaaggctcatcatagggcttttagtctcatttgct 264

                                                                       
Query: 65  catggtctatccccagagcctgtgagagggcctgatacaagaattgctgaataaattaaa 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 catggtctatccccagagcctgtgagagggcctgatacaagaattgctgaataaattaaa 324

                                                                       
Query: 125 accaaggccagaaccataagagtgatgcacaggctagttaggaggaagacagttcctaag 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 accaaggccagaaccataagagtgatgcacaggctagttaggaggaagacagttcctaag 384

                                                                       
Query: 185 ctccagctctgcactgggtctgtactcatagatttagcaggctactgcagaccaacttgg 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 ctccagctctgcactgggtctgtactcatagatttagcaggctactgcagaccaacttgg 444

                                                                       
Query: 245 ggtagcacatggtatgaccagggcacagaagactaaggcatggcttggggagggcaggca 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 445 ggtagcacatggtatgaccagggcacagaagactaaggcatggcttggggagggcaggca 504

                                                                       
Query: 305 gattgaagctcatgtacttggattcctgcccaagtggtgggagtattttaacacaagctg 364
           |||||||||||| | |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 gattgaagctcagggacttggattcctgcccaagtggtgggagtattttaacacaagctg 564

                                                                       
Query: 365 tgggaggatgcaagaggcaacagtcacatgtgtgctggctttagcagcaatatacacaga 424
           ||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 565 tgggaggatgcaagaggcaacagtcacatgtgtgctggccttagcagcaatatacacaga 624

                                                                       
Query: 425 atcaatatccaatgggggtgagaaatatgtctcctcagaaggttcactggtcttccttgg 484
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 625 atcaatatccaatgggggtgagaaatatgtctcctcagaaggttcactggtcttccttgg 684

                                                                       
Query: 485 ccaggcactattgtagggactgcccagcaggccaatttgattcccagaaagctcagaaga 544
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 685 ccaggcactattgtagggattgcccagcaggccaatttgattcccagaaagctcagaaga 744

                                                                       
Query: 545 gttattctgaggtaagaacttagcagatgaagaaactgaggaggcccagagaggcaaagg 604
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 745 gttattctgaggtaagaacttagcagatgaagaaactgaggaggcccagagaggcaaagg 804

                                                                     
Query: 605 gacaaccaaggtgaaaggacaggaggtcaaagagcagggtgggacaggccagaaatgg 662
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 805 gacaaccaaggtgaaaggacaggaggtcaaagagcagggtgggacaggccagaaatgg 862


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: 34
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: 662
Length of database: 1062
Length adjustment: 10
Effective length of query: 652
Effective length of database: 1052
Effective search space:   685904
Effective search space used:   685904
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= MSMg01no273_e02.g1 MSMg01no273_e02.g1 CHROMAT_FILE:
MSMg01no273_e02.g1 PHD_FILE: MSMg01no273_e02.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:12:35 2005
         (286 letters)



>mm_chr6_89486749_89487434
          Length = 686

 Score =  545 bits (282), Expect = e-160
 Identities = 285/286 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   taactagagtctgatctccccaaggcatggaggccccaaatcagcacttgaggttaaagc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 486 taactagagtctgatctccccaaggcatggaggccccaaatcagcacttgaggttaaagc 427

                                                                       
Query: 61  caaacatggtgcagctagctgtgggaggctctgggaaggaagtctcgttaagcaagttgg 120
           |||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 426 caaacatggtgcagctagctgtgggaggctctgggaaggaagtctcgtgaagcaagttgg 367

                                                                       
Query: 121 gagaatccccgtttcagcagcaaatcagaccaggtgtgttttcagcagagttttccttag 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 366 gagaatccccgtttcagcagcaaatcagaccaggtgtgttttcagcagagttttccttag 307

                                                                       
Query: 181 cagatcagtactttgttcagcagttggttagagcaggtggaatcgcagcagggtttgggg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 306 cagatcagtactttgttcagcagttggttagagcaggtggaatcgcagcagggtttgggg 247

                                                         
Query: 241 ataggttgaaggaagagttctgatgaccaaatgctagactcgggag 286
           ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 246 ataggttgaaggaagagttctgatgaccaaatgctagactcgggag 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: 14
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: 286
Length of database: 686
Length adjustment: 9
Effective length of query: 277
Effective length of database: 677
Effective search space:   187529
Effective search space used:   187529
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)