BAC Information

Click to search

BAC

Clone NameMSMg01-546E01
Chromosome8 (Build37)
Map Location 29,609,860 - 29,775,145
singlet/doubletdoublet
Overlap geneEG666446, LOC100042598, Unc5d
Upstream geneGm1698, EG666422, LOC666430
Downstream geneLOC100041237
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-546E01.T7 (MSMg01no546_e01.b1)MSMg01-546E01.TJ (MSMg01no546_e01.g1)
ACCAG611121AG611122
length714726
length of high quality
(start - end)		671 (44 - 714)577 (73 - 649)
definitionCHROMAT_FILE: MSMg01no546_e01.b1 PHD_FILE: MSMg01no546_e01.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:27:29 2005CHROMAT_FILE: MSMg01no546_e01.g1 PHD_FILE: MSMg01no546_e01.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:27:29 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(29,774,478 - 29,775,145)(29,609,860 - 29,610,436)
sequence
TATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAA
TTCAAGTACTTTTTTTGTGGAAATTTTCCAACATAGTGCCCAGAAAGCAT
TTTCAACAAATGTTAGTTGCCCACCTTGACATTACCACAATGAATATAAA
AATTAGAATAGCGTGAATGCGTATAATCTACTTCCCTCTCAAAATCATAT
CCAGATAACAGATTCAGTTCAGAGTGCAGTATTTCCTACCTTCCTCTTTG
TCCACCAGCTTCCATCTTTAAAATCCTAACTGGGAAGTGAAGGACCTCAA
CCAGGGTCAGCACAGTTTCTGTAAGTCGCCAGATAAGAACAAATTAGGCC
ATATGAGATCTGCTGCCAACAACTCAATAACAGCTTACCTTTCTGTCTCT
GTGACATGAAGCTTCCGGGGAAGGGTGGGATGCCCACCCAAGTAGGCCTT
GACTGTTCTAGTGAAGTGTGAACAGATAGCGTCCTGCATTTCCTCTCAAT
CTGTTCTTCCCAGAACCCTGACCTGCAGTAGTCAATCCTCATTGGCTGAA
GCTTCCTTATGATTTTGTTGCTCTTGTTAAAGCATTGCCAGGAGCTGAGG
ATTCTCCTTCAGTTCTACTCCTAGCCTCCTTCAAGGTGAAAGAGGCTGCT
GAGGCTGGGACTGACACAGATGCGGAAATATCTGGAGAAGCAGAGTAGGA
AGATTCCTTGGAAC

ATGAAGTGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXTCTACATAAGCAAGAAACATACCTATCT
TTCTAACTCTACCTGCCAGGGCAAGCTGTGTTGTTTAAAAACAGTTCCAC
AAATAGTCCATACTTTTTCAATAAGCTCATCTAATCTCTAAATCATAGAT
CTCCTAACCCTGCCCAGTAGACCAGAAAAAGAACTGGAGTTTGATAACCA
TTTCCTCATCCTTCAGCTTATCCAAAGCATCCCCAGAAAGACATGATCTT
CCTCAGATACCAATTTTATGTCTTTCCTGTAGGATCAGAATCCTTAAACA
CTGCAATTTTTACAGGTTCTGATCTATAGCTATAACTGATAAATTTTCAG
TTACACCAAAAATACAAAATTGAATTTCAGGTGGGGGTATATCCAGGGGT
CACCATACTTACTCAGAGAAGAAAGGGAGAGGGGAGAGGGGAAGGACTGA
TAGAGGCAGTGAGCGGGATGTAAAGTGAATAAGTATAAAACTAAAATTTA
ATTTAAAATTTGAATATCTACCCTTTTTATTATTATTATTTTTATTAGGT
ATTTTCTTCATTTACATTTCCAATGCTATCCCAAAAGTCCCCCATAACCT
TTCCCCCTTCCCTCTCTACCCACTCCCACTTCTTGGCCCTGGTGTTCCTC
TCCACTGAGGCATATAAAGTTTGCAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no546_e01.b1 MSMg01no546_e01.b1 CHROMAT_FILE:
MSMg01no546_e01.b1 PHD_FILE: MSMg01no546_e01.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:27:29 2005
         (671 letters)



>mm_chr8_29774275_29775345
          Length = 1071

 Score = 1207 bits (624), Expect = 0.0
 Identities = 657/668 (98%)
 Strand = Plus / Minus

                                                                       
Query: 4   ggaattcaagtactttttttgtggaaattttccaacatagtgcccagaaagcattttcaa 63
           ||||||||||||| | ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 871 ggaattcaagtacctattttgtggaaattttccaacatagtgcccagaaagcattttcaa 812

                                                                       
Query: 64  caaatgttagttgcccaccttgacattaccacaatgaatataaaaattagaatagcgtga 123
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 811 caaatgttagttgtccaccttgacattaccacaatgaatataaaaattagaatagtgtga 752

                                                                       
Query: 124 atgcgtataatctacttccctctcaaaatcatatccagataacagattcagttcagagtg 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 751 atgcgtataatctacttccctctcaaaatcatatccagataacagattcagttcagagtg 692

                                                                       
Query: 184 cagtatttcctaccttcctctttgtccaccagcttccatctttaaaatcctaactgggaa 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 691 cagtatttcctaccttcctctttgtccaccagcttccatctttaaaatcctaactgggaa 632

                                                                       
Query: 244 gtgaaggacctcaaccagggtcagcacagtttctgtaagtcgccagataagaacaaatta 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| 
Sbjct: 631 gtgaaggacctcaaccagggtcagcacagtttctgtaagtcgccagataagaacaaattg 572

                                                                       
Query: 304 ggccatatgagatctgctgccaacaactcaataacagcttacctttctgtctctgtgaca 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 571 ggccatatgagatctgctgccaacaactcaataacagcttacctttctgtctctgtgaca 512

                                                                       
Query: 364 tgaagcttccggggaagggtgggatgcccacccaagtaggccttgactgttctagtgaag 423
           |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 511 tgaagcttccagggaagggtgggatgcccacccaagtaggccttgactgttctagtgaag 452

                                                                       
Query: 424 tgtgaacagatagcgtcctgcatttcctctcaatctgttcttcccagaaccctgacctgc 483
           |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 451 tgtgaacagatagcgtcctgcatttcctctcagtctgttcttcccagaaccctgacctgc 392

                                                                       
Query: 484 agtagtcaatcctcattggctgaagcttccttatgattttgttgctcttgttaaagcatt 543
           ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct: 391 agtagtcaatcctcattggctaaagcttccttatgattttgttgctcttgttaaagcatt 332

                                                                       
Query: 544 gccaggagctgaggattctccttcagttctactcctagcctccttcaaggtgaaagaggc 603
           |||||||||||||||||||||||| ||||||| |||||||||||||||||||||||||||
Sbjct: 331 gccaggagctgaggattctccttcggttctacgcctagcctccttcaaggtgaaagaggc 272

                                                                       
Query: 604 tgctgaggctgggactgacacagatgcggaaatatctggagaagcagagtaggaagattc 663
           |||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 271 tgctgatgctgggactgacacagatgcggaaatatctggagaagcagagtaggaagattc 212

                   
Query: 664 cttggaac 671
           ||||||||
Sbjct: 211 cttggaac 204


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: 671
Length of database: 1071
Length adjustment: 10
Effective length of query: 661
Effective length of database: 1061
Effective search space:   701321
Effective search space used:   701321
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= MSMg01no546_e01.g1 MSMg01no546_e01.g1 CHROMAT_FILE:
MSMg01no546_e01.g1 PHD_FILE: MSMg01no546_e01.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:27:29 2005
         (577 letters)



>mm_chr8_29609660_29610636
          Length = 977

 Score = 1085 bits (561), Expect = 0.0
 Identities = 573/577 (99%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  gtttaaaaacagttccacaaatagtccatactttttcaataagctcatctaatctctaaa 120
           |||||||||||| |||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 261 gtttaaaaacaggtccacaaatagtccatactttttcaataagctcacctaatctctaaa 320

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

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

                                                                       
Query: 241 attttatgtctttcctgtaggatcagaatccttaaacactgcaatttttacaggttctga 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 441 attttatgtctttcctgtaggatcagaatccttaaacactgcaatttttacagtttctga 500

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

                                                                       
Query: 361 gggggtatatccaggggtcaccatacttactcagagaagaaagggagaggggagagggga 420
           |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 561 gggggtatatccaggggtcaccctacttactcagagaagaaagggagaggggagagggga 620

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

                                                                       
Query: 481 ttaaaatttgaatatctaccctttttattattattatttttattaggtattttcttcatt 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 ttaaaatttgaatatctaccctttttattattattatttttattaggtattttcttcatt 740

                                                
Query: 541 tacatttccaatgctatcccaaaagtcccccataacc 577
           |||||||||||||||||||||||||||||||||||||
Sbjct: 741 tacatttccaatgctatcccaaaagtcccccataacc 777


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: 29
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: 577
Length of database: 977
Length adjustment: 10
Effective length of query: 567
Effective length of database: 967
Effective search space:   548289
Effective search space used:   548289
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)


| Home | SequenceCutter | Blast | Download |