BAC Information

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BAC

Clone NameMSMg01-378O03
Chromosome5 (Build37)
Map Location 13,416,148 - 13,416,466
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 nameMSMg01-378O03.T7 (MSMg01no378_o03.b1)MSMg01-378O03.TJ (MSMg01no378_o03.g1)
ACCAG483626AG483627
length752769
length of high quality
(start - end)
402 (74 - 475)319 (78 - 396)
definitionCHROMAT_FILE: MSMg01no378_o03.b1 PHD_FILE: MSMg01no378_o03.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:19:29 2005CHROMAT_FILE: MSMg01no378_o03.g1 PHD_FILE: MSMg01no378_o03.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:19:29 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
NGGGTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
CGCGGAATTCTCTGTNTTGNTCAATACCCTATTCTTTAATTGGGTTATTT
GGCTTGTTGGTATCTAACTTCTGGAGTTTTTTATACATTTAGGAGATTTT
CTATGTAGAGCTGCTGAAGATATACCCAATCTCTAGACTGCTGTTGTGTC
CTATTAACAGTGTCATGTGCCTTACAGGGGCTTTTAAGTTTTACGAGGCC
CCATGTCTTTATTTTTTACCTTGGTGCCTGATCTATTGAAGTTTTGTTTA
GGAAATTGTTTCCTGTACCAATGATATCAAGGCTATTTCCCACTTTAACT
TCTACTAAATTTAGCATATCTGGCTTTATGTTGAGGTTTGTCACCCACTT
GGACTTCAGTTTGGAAGAGTTTTGAGGTCACACACACACACACACACACA
CATATATATATATAAAATCATACACTCACACATATATATATATACTGTAC
ACACACCTATATATTATCATACACATATATACTGTACTGTACACACACAT
ACATATATACCTACATATGTATATATTCAAATACAGATCTATTTGTATTC
TTCTACTTGCACACATTCCTCTATACCATTAACATCTGTTGCAGATACTT
ACTTTTTTTATTTTGCATGGCGGTTTTGGCGCCTTTTGTGTAATGTACAT
CGTCCCACTGATTGTACATTTCACTTCCTTGGCCCTTCCTCTTGATATCC
CT
CTCGATGATATGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXTAGAATGGTTGTTTAAAATGGCT
TCCAAAGTCGCAGACATGATAGTCAAAGAAAGGCAATAGTAAATGTGTAA
GGAAAGAGCAGACAATTTACAATTTAATGGTCCTGTGCAAGAAGTAGAGT
TATCTACAGACACTGAAGGGGGTTCTGGCCCACAAGTGATCTGTCACATA
TGTACTTCACTCACACTTCTAAGCCACTATTGCCATATTACTTTGTGAGC
TGAGAGAAATGGCTTTGATGTGATTTTTGGGAGCCTGATCTGGAATCATT
TATGCTAGTATCATGTGCTAAGTTTGGTGTGTGTACCTTCATTTTTAGTA
CTAAAAGATACCATTCATAAATGTGTAACATGTTGCCTGTCTAATCTTTC
TTTCTTTGCTCCATAGAAACTCCTAGTTTGGTCCTTAATATATAGCTATG
TCTTTGAAGCCACCTAGTTTCTTACATATGACTCTAAGATTATCTTTTAC
TTATTAATGCTTCCTTTTAATAGGTCTGTTCCATTCTTTTTTAATTTGTT
AGTTACTGTTGCCCCCTTATCTCTTGTTTATTTTCCTCTGCGTTGATAAA
CTGCAATCAATGTTAATTCTCTTTATTATCTACTGCCTTCTAATTCTATC
CTTCCCTCCTTGTATCTTTTTTCTCCCTTTTTCCCTCCCTGTCCCTTCTC
CCTTCTTACTTCCTTTATA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no378_o03.g1 MSMg01no378_o03.g1 CHROMAT_FILE:
MSMg01no378_o03.g1 PHD_FILE: MSMg01no378_o03.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:19:29 2005
         (319 letters)



>mm_chr5_13415948_13416666
          Length = 719

 Score =  601 bits (311), Expect = e-176
 Identities = 317/319 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   tagaatggttgtttaaaatggcttccaaagtcgcagacatgatagtcaaagaaaggcaat 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 519 tagaatggttgtttaaaatggcttccaaagtcgcagacatgatagtcaaagaaaggcaat 460

                                                                       
Query: 61  agtaaatgtgtaaggaaagagcagacaatttacaatttaatggtcctgtgcaagaagtag 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 459 agtaaatgtgtaaggaaagagcagacaatttacaatttaatggtcctgtgcaagaagtag 400

                                                                       
Query: 121 agttatctacagacactgaagggggttctggcccacaagtgatctgtcacatatgtactt 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 399 agttatctacagacactgaagggggttctggcccacaagtgatctgtcacatatgtactt 340

                                                                       
Query: 181 cactcacacttctaagccactattgccatattactttgtgagctgagagaaatggctttg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 339 cactcacacttctaagccactattgccatattactttgtgagctgagagaaatggttttg 280

                                                                       
Query: 241 atgtgatttttgggagcctgatctggaatcatttatgctagtatcatgtgctaagtttgg 300
           ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 279 atgtgatttttgggagcctgatctggaatcatttatgctagtagcatgtgctaagtttgg 220

                              
Query: 301 tgtgtgtaccttcattttt 319
           |||||||||||||||||||
Sbjct: 219 tgtgtgtaccttcattttt 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: 15
Number of extensions: 2
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: 319
Length of database: 719
Length adjustment: 9
Effective length of query: 310
Effective length of database: 710
Effective search space:   220100
Effective search space used:   220100
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)