BAC Information

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BAC

Clone NameMSMg01-357G03
Chromosome5 (Build37)
Map Location 13,467,210 - 13,615,683
singlet/doubletdoublet
Overlap geneSema3a
Upstream geneSema3d, LOC668015, LOC100042917, LOC668069, LOC433845, LOC625989, LOC670717
Downstream geneLOC208055, LOC626053, Speer3, EG626067, LOC668085, LOC384149, LOC384148, Sema3e, LOC100042957, Pclo
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-357G03.T7 (MSMg01no357_g03.b1)MSMg01-357G03.TJ (MSMg01no357_g03.g1)
ACCAG467298AG467299
length741750
length of high quality
(start - end)		506 (44 - 549)450 (74 - 523)
definitionCHROMAT_FILE: MSMg01no357_g03.b1 PHD_FILE: MSMg01no357_g03.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:51:21 2005CHROMAT_FILE: MSMg01no357_g03.g1 PHD_FILE: MSMg01no357_g03.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:51:22 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(13,467,210 - 13,467,711)(13,615,234 - 13,615,683)
sequence
ATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAA
TTCCAAATTTCTCAGGTTGAACTCTAGTCAAATATAATATCTACAATTTA
TCATAGTGATATGTGTATATACACTAATACACATAAGCATGAACATATAT
GTAGACCCGTTTGTAGATTTTTGGTCTATTATCCTAAATTATTTGAAGAA
ATACTTTTGTTTCAAAAAGCTGGACAAATGGAATTTGTGAAATTTCACTT
TAATATCTAATTATGTGTGACGTAGAAGACCATAACTTAGATAACTAACA
TCAAAACTTTTTTATTACATTTGTTTTATTTTGCTAAAAATTTAAACAGC
AACCATAAATGTCTTTGACCAAGCATCTTTTATCATTACACAATCAACAT
GCCTGCAGTCTCTTTTACATTTGTTCCCAGAATGCCACAACATAAAACTA
CAGTATGGCTTGAAACAACCAACATTTATTTTGTCCCAGTCATGGCAGCT
TGAAGCAAAAGAGCTAAGCCTCCAAAGGGCTGGCTTTGAGGCCCACTCAT
TGGCTTGTTCCTCAGTACGTCTCATAATGCTTCTCTGGATGCTCATTCCT
CTGTGCCCGCTCACCCTGACGCCTCTCTATGAATCTTTCTTTCCTCCCTG
GAAAAACCCCCATTACATTATAATAAGCCTTATCCTTACGCTTTCCCTTA
ACTTACCTCCTTCTAGGGTCCAATTCGCTATCCCCACCTTC

TTGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXAATACTATGGAAGCATTTGCATTGACT
AGCAATAGTAGACACTGGTGCTTTTTGCTGGCAGAGAAATAGAATAGTTG
TTGAAAGCTTGGTAAATAGTGTCTGGTACATAAACAATGCACACATGGAT
TTTATTTATGATGGTTTTTAATAAGCCTGAACTTTGGATCAGCTGGAGGT
AGTGCAAAAAGCAGTAGTAGACCACCCAGCAGGAGCTGAAAATAAATCAA
ATACCTCAAATATATGGTACATATATGCGCATATGTACCTAATGTAAATT
ATGTTTTTAAATGTTGGATGCATATTTTCTGAGGTATAACCATACTCAGA
TAGTCTAAGGAAATTGCCTCAGATTTGTTTTTGAGGCTAAGGTTACCTAT
TTACCTTTAAATAATTCTTTTATTGGTTATTTTGGTGTTTTTATTTATAG
GAAGTATTTAAATCACTGTGCTTCATTCTATAGAAAAATATACAGCAGAT
TGGCAGACTATACTGTTACGAAATTCTGATATCCATTCCTACATTTTTCC
CCAAATTCAGGAAATTTATTATTGTCGAAAATACCCTTTTGTTATTCTAT
AAACATATCTTAAATTGGGAATTGTACACTATGCGGACTGTCTCCTGCCT
TCGTCCCTTTAATGCCTCTTCTTACGAGGGATTTTTTAACCACACTTCAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no357_g03.b1 MSMg01no357_g03.b1 CHROMAT_FILE:
MSMg01no357_g03.b1 PHD_FILE: MSMg01no357_g03.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:51:21 2005
         (506 letters)



>mm_chr5_13467006_13467911
          Length = 906

 Score =  940 bits (486), Expect = 0.0
 Identities = 498/502 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattccaaatttctcaggttgaactctagtcaaatataatatctacaatttatcatagt 64
           |||||| |||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattctaaatttcttaggttgaactctagtcaaatataatatctacaatttatcatagt 264

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

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

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

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

                                                                       
Query: 305 agcaaccataaatgtctttgaccaagcatcttttatcattacacaatcaacatgcctgca 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 agcaaccataaatgtctttgaccaagcatcttttatcattacacaatcaacatgcctgca 564

                                                                       
Query: 365 gtctcttttacatttgttcccagaatgccacaacataaaactacagtatggcttgaaaca 424
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 565 gtctcttttacatttgttcccagaatgccacaacataaaactacagtatggcttgaaaca 624

                                                                       
Query: 425 accaacatttattttgtcccagtcatggcagcttgaagcaaaagagctaagcctccaaag 484
           ||| ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 625 accgacatttattttgtcccagtcatggcagcttgaagcaaaagatctaagcctccaaag 684

                                 
Query: 485 ggctggctttgaggcccactca 506
           ||||||||||||||||||||||
Sbjct: 685 ggctggctttgaggcccactca 706


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: 506
Length of database: 906
Length adjustment: 10
Effective length of query: 496
Effective length of database: 896
Effective search space:   444416
Effective search space used:   444416
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= MSMg01no357_g03.g1 MSMg01no357_g03.g1 CHROMAT_FILE:
MSMg01no357_g03.g1 PHD_FILE: MSMg01no357_g03.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:51:22 2005
         (450 letters)



>mm_chr5_13615034_13615883
          Length = 850

 Score =  870 bits (450), Expect = 0.0
 Identities = 450/450 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   aatactatggaagcatttgcattgactagcaatagtagacactggtgctttttgctggca 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 650 aatactatggaagcatttgcattgactagcaatagtagacactggtgctttttgctggca 591

                                                                       
Query: 61  gagaaatagaatagttgttgaaagcttggtaaatagtgtctggtacataaacaatgcaca 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 590 gagaaatagaatagttgttgaaagcttggtaaatagtgtctggtacataaacaatgcaca 531

                                                                       
Query: 121 catggattttatttatgatggtttttaataagcctgaactttggatcagctggaggtagt 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 530 catggattttatttatgatggtttttaataagcctgaactttggatcagctggaggtagt 471

                                                                       
Query: 181 gcaaaaagcagtagtagaccacccagcaggagctgaaaataaatcaaatacctcaaatat 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 470 gcaaaaagcagtagtagaccacccagcaggagctgaaaataaatcaaatacctcaaatat 411

                                                                       
Query: 241 atggtacatatatgcgcatatgtacctaatgtaaattatgtttttaaatgttggatgcat 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 410 atggtacatatatgcgcatatgtacctaatgtaaattatgtttttaaatgttggatgcat 351

                                                                       
Query: 301 attttctgaggtataaccatactcagatagtctaaggaaattgcctcagatttgtttttg 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 350 attttctgaggtataaccatactcagatagtctaaggaaattgcctcagatttgtttttg 291

                                                                       
Query: 361 aggctaaggttacctatttacctttaaataattcttttattggttattttggtgttttta 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 290 aggctaaggttacctatttacctttaaataattcttttattggttattttggtgttttta 231

                                         
Query: 421 tttataggaagtatttaaatcactgtgctt 450
           ||||||||||||||||||||||||||||||
Sbjct: 230 tttataggaagtatttaaatcactgtgctt 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: 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: 450
Length of database: 850
Length adjustment: 10
Effective length of query: 440
Effective length of database: 840
Effective search space:   369600
Effective search space used:   369600
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)


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