BAC Information

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BAC

Clone NameMSMg01-120J23
Chromosome5 (Build37)
Map Location 13,417,997 - 13,418,430
singlet/doubletsinglet
Overlap geneSema3a
Upstream geneSema3d, LOC668015, LOC100042917, LOC668069, LOC433845, LOC625989, LOC670717
Downstream geneLOC208055, LOC626053, Speer3, EG626067, LOC668085, LOC384149, LOC384148, Sema3e, LOC100042957
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-120J23.T7 (MSMg01no120_j23.b1)MSMg01-120J23.TJ (MSMg01no120_j23.g1)
ACCAG330944AG330945
length708764
length of high quality
(start - end)
645 (46 - 690)244 (73 - 316)
definitionCHROMAT_FILE: MSMg01no120_j23.b1 PHD_FILE: MSMg01no120_j23.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:28:07 2005CHROMAT_FILE: MSMg01no120_j23.g1 PHD_FILE: MSMg01no120_j23.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:28:08 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
TTCAATXXXXXXXXXXXXXXXXXXXXXXXXXATTTCAAAGAGGATCCGCG
GAATTCTTTGTTTCCATAAATATAAATAAGTAATGACATGTAATTTACTA
TGTATGCTTTAAAAATGTTATAACATTGTGTAAAATAATTTTATAAGACT
CCATATCATTTTCTAAGTCATAATAATGAGTAAATTTCTAGAATAGACTT
TGTCTTCTTAGATATTTTAATTTAGTTTACTATAATTCATATTCTGTTTT
AAATTTTTTTTGAGTCTATATTTTGTTTTCATATATATCTGCGTACCACA
TGCATCTAATGCCTGTGGAGACTTGAGGAAGGTGTAAGATTCCATGGGAC
ATGCAGACAATTGTTAGCTGTTATGTGGCATCTTGGAATCAAGCCTGTAT
CTTCTGGAAGAGCAACCAGTGCTCTTAACTAGTGAGCCATCTCTCCAGTT
CCGTAGTCTCTAGTCTACAGGTGTTTTCATTTTTATAATGATATTGAGTT
ACCAATCTAAATGTTACTTTAAGAAAATAAAACAATCTTTACATAACTTC
TTTAAAGTATAATATTTTCTGAAATATTTAGTGTCTCCTGCTTAATTTTT
AAGACTTTAAAGACAAGACTCTCAAACTTGCAAAAGGTCATTTTTCTACC
CTAATGACTCTATATAACTACAGCACCACAGCCTTTGAACAGTTATTTGA
GTGTCTGA
CGAATGATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXTTTACCCAAAGAAATCTCTTTTTCCAATTAGTATCCCAGTG
ATCTCATTTAGTTGATGAAAAGACTGCGGTTCACATCATGGGGGGATAGG
AAGTCCACAGAAAGACTAGCAGAGTTAACTAACCTGGATGCTTGGGGGCT
CTCAGAGACTGAACTACCAATCAAAGAGCATACACAGACTGGAACTAGTC
CCTCTACACACATGTAGCAGTTATGCTGCTGTTTGATCTTCATGTGGGTC
CACTAAAAATTGAAGCACTTTTGTTGTCTCTAAACTTGTTGCCAGTCTGG
TGATCCCATTCCTCTAACCGGCCATTCCTCTAAGTCTTGTCTGGGCTCAG
TCAGAGAGGTTGTGCCTAGCCCCTGGAAGAGACTTGATGTGTCAGGGTTG
CTGGCAGGGGAGGGGATTGGGGGTTAGGAGGGAGGGAGTCTCCTTTTTCA
CCCCCCTATTTCCTTCCCTTTTTTCCTTTCTTTATAATCCCTATACTACT
TAATATAACACATCCCCTCGCTTATTCATTATTATTTCTCTCCACTTCTT
CTCCTCCATTTTTTCTTCTCTTCATCTTTTATTCTCTCTTACCATATATC
CCCTCTATATCTCCACCCTATAAACCACTTTATTCTCTTTCTATTTTTTA
TATCTATCTCACCAACCCCCTCTATCTCCTCTCTTTATATTATACCCTCA
CTCCTACTTTCCTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no120_j23.b1 MSMg01no120_j23.b1 CHROMAT_FILE:
MSMg01no120_j23.b1 PHD_FILE: MSMg01no120_j23.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:28:07 2005
         (645 letters)



>mm_chr5_13417390_13418434
          Length = 1045

 Score =  770 bits (398), Expect = 0.0
 Identities = 425/434 (97%)
 Strand = Plus / Minus

                                                                        
Query: 212  tttttgagtctatattttgttttcatatatatctgcgtaccacatgcatctaatgcctgt 271
            ||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct: 1041 tttttgagtctatattttgttttcatacatatctgcgtaccacatgcatctaatgcctgt 982

                                                                        
Query: 272  ggagacttgaggaaggtgtaagattccatgggacatgcagacaattgttagctgttatgt 331
            ||||||||||||||||||||||||||| |||||||||||||||||||| |||||||||||
Sbjct: 981  ggagacttgaggaaggtgtaagattccctgggacatgcagacaattgtcagctgttatgt 922

                                                                        
Query: 332  ggcatcttggaatcaagcctgtatcttctggaagagcaaccagtgctcttaactagtgag 391
            ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct: 921  ggcatcttggaatcaagcctgcatcttctggaagagcaaccagtgctcttaactagtgag 862

                                                                        
Query: 392  ccatctctccagttccgtagtctctagtctacaggtgttttcatttttataatgatattg 451
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct: 861  ccatctctccagttccgtagtctctagtctacaggtgttttcatttttataatgatatcg 802

                                                                        
Query: 452  agttaccaatctaaatgttactttaagaaaataaaacaatctttacataacttctttaaa 511
            |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 801  agttaccaatctaaatgttactctaagaaaataaaacaatctttacataacttctttaaa 742

                                                                        
Query: 512  gtataatattttctgaaatatttagtgtctcctgcttaatttttaagactttaaagacaa 571
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 741  gtataatattttctgaaatatttagtgtctcctgcttaatttttaagactttaaagacaa 682

                                                                        
Query: 572  gactctcaaacttgcaaaaggtcatttttctaccctaatgactctatataactacagcac 631
            ||||||||||||||| ||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 681  gactctcaaacttgctaaaggtcgtttttctaccctaatgactctatataactacagcac 622

                          
Query: 632  cacagcctttgaac 645
            | ||||||||||||
Sbjct: 621  cgcagcctttgaac 608


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: 18
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: 645
Length of database: 1045
Length adjustment: 10
Effective length of query: 635
Effective length of database: 1035
Effective search space:   657225
Effective search space used:   657225
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)