BAC Information

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BAC

Clone NameMSMg01-466B03
Chromosome5 (Build37)
Map Location 13,358,743 - 13,525,789
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 nameMSMg01-466B03.T7 (MSMg01no466_b03.b1)MSMg01-466B03.TJ (MSMg01no466_b03.g1)
ACCAG550102AG550103
length858755
length of high quality
(start - end)		153 (49 - 201)491 (79 - 569)
definitionCHROMAT_FILE: MSMg01no466_b03.b1 PHD_FILE: MSMg01no466_b03.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:41:25 2005CHROMAT_FILE: MSMg01no466_b03.g1 PHD_FILE: MSMg01no466_b03.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:41:25 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(13,525,656 - 13,525,789)(13,358,743 - 13,359,233)
sequence
ATACTCAATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCG
CGGAATTCTCAAATTACCCACACATTTTCAGAGATGAAGTACAGAGCTGT
GGACAATGACTGTGCTTTCCCACAGTGTAAATTCTTCAGAGTCAGCTGTC
AACATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGTGTGTGTGTCTN
CACCCACTCTCCCTACCTTTCCCTTCTCTTCTTTACCTTAATTGTCATTG
TCTTCTCCACCACACCCAGGACAGACCTTCTTCGAGAACAGATTTAGTGA
AAACATATTTCCCTGATTTTTTCTTTGCTTGTGCCGCTTTGCATTAGTAT
TAATCGTCGTTGACTCTCGCATCTCTTCTCCTCATCCCCGCATTCTCTGC
TATAATTCATGGATGTTTCCTTTCGCCCTATTGCCTTACATCTCCTATTC
TAATCCTTATTCGCCTATGTCTGCTACTCTCGTCTCTATCATGTCTCCCT
ATCATTCTTTTTGTTATACCACCTAGACCTCCCCCCCTCTCCTCTCTACC
TCCGTCTCACCCTTTCCCCTTCCCCACTTTCTTCTTCTATTCACCCCTCC
TCCCTCCCCTATATTATTTTTCTCATCCTATTTACAATAACTCCTAACTC
TTATTCTCCCTCCTCCTTCTCCCTACTTCTCCCCTCTTTTCTTTTCTCTT
CTCCTTCCTCATTCACCCACTATATTCCTTCTATCAATTCTATCATTTCA
ACTCCCTCTCACCCCCCCACTTTATTCTATAACCTCCTCACTCACCCCCT
CCTTTTCCCTATTATTATCTCTAATTTCTATTTATTTGTTCTCTCTTTTT
TTCTTTCC

CCCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXAAGGGAAGATTGATATTAATTT
TTTAATTATATTTTCCAAAAAGAGACCATGATCATCTGAATTATAGAAAC
TTAACTCTGAGTTGGGAGAACTAAAGGAAAAAAGTTTGAAAACTTGTGTA
GGCTGCTATTCGAGAACTCTAGGGTAGAAGTGATTGATGGCCACCTTAGG
TCAGTACAACTGGGAGCAGAGAGGAAGTAACACCTCATTCAAGACTTCAC
TTCGTTTGCCCACTGACAAATGCAGGATAGACACATCATTAATACAGATA
TGGTGACCAGCAATGAGGCAGAGAGGAGAGAGGAAGTTCAAGAAGTCTGA
CGTTTTCAATCCAATCAGAGGCCAGGATGGCAGGCTTCTTAAGAAACATG
GGACAAAGAATGTCTCGAAGAGAAACTAACAAAATCTGGTTTGTACCAAC
AGAATTAGAGATGACTTCAGGCTTTTGTGTACAGTAAACAGCAGGCAGTT
AGGCGGGTGCCTTTGATGTTAAGGTAGCACTTATAAGGCCTTAAGGAACG
AGAGTGTCCATATTTGTGCAAGTGAAGTGGATTAGTGCCCTATCCCCTTA
CTATCTTTTTCATTTCTCCCACCCCTCCTTTTCTTTCTGTACCCTTTTTT
CTTTTTCTTTCTAATTTTCTTTTCTTTCTTTCTCCCCTTCCCTTTATATT
TTCCG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no466_b03.b1 MSMg01no466_b03.b1 CHROMAT_FILE:
MSMg01no466_b03.b1 PHD_FILE: MSMg01no466_b03.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:41:25 2005
         (153 letters)



>mm_chr5_13525484_13526036
          Length = 553

 Score =  228 bits (118), Expect = 1e-64
 Identities = 130/134 (97%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattctcaaattacccacacattttcagagatgaagtacagagctgtggacaatgactg 64
           |||||||||||| | |||||||||||||||||||||||||||||||| ||||||||||| 
Sbjct: 306 gaattctcaaatgaaccacacattttcagagatgaagtacagagctgcggacaatgactc 247

                                                                       
Query: 65  tgctttcccacagtgtaaattcttcagagtcagctgtcaacatgtgtgtgtgtgtgtgtg 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 246 tgctttcccacagtgtaaattcttcagagtcagctgtcaacatgtgtgtgtgtgtgtgtg 187

                         
Query: 125 tgtgtgtgtgtgtg 138
           ||||||||||||||
Sbjct: 186 tgtgtgtgtgtgtg 173


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: 32
Number of extensions: 7
Number of successful extensions: 7
Number of sequences better than 10.0: 1
Number of HSP's gapped: 7
Number of HSP's successfully gapped: 1
Length of query: 153
Length of database: 553
Length adjustment: 8
Effective length of query: 145
Effective length of database: 545
Effective search space:    79025
Effective search space used:    79025
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)

Query= MSMg01no466_b03.g1 MSMg01no466_b03.g1 CHROMAT_FILE:
MSMg01no466_b03.g1 PHD_FILE: MSMg01no466_b03.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:41:25 2005
         (491 letters)



>mm_chr5_13358543_13359433
          Length = 891

 Score =  895 bits (463), Expect = 0.0
 Identities = 484/491 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   aagggaagattgatattaattttttaattatattttccaaaaagagaccatgatcatctg 60
           ||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct: 201 aagggaagattgatattaattttttaaatatattttccaaaaagagaccatgatcatctg 260

                                                                       
Query: 61  aattatagaaacttaactctgagttgggagaactaaaggaaaaaagtttgaaaacttgtg 120
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 261 aattatagaaacttaactctgagttgggagaactaaaggaaaaaagtttgaaaactcgtg 320

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

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

                                                                       
Query: 241 aatgcaggatagacacatcattaatacagatatggtgaccagcaatgaggcagagaggag 300
           ||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 441 aatgcaggatagacacatcattaatacagatatggtgactagcaatgaggcagagaggag 500

                                                                       
Query: 301 agaggaagttcaagaagtctgacgttttcaatccaatcagaggccaggatggcaggcttc 360
           |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 501 agaggaagttcaagaagtctgacgttttcaatccaagcagaggccaggatggcaggcttc 560

                                                                       
Query: 361 ttaagaaacatgggacaaagaatgtctcgaagagaaactaacaaaatctggtttgtacca 420
           ||||||||||||||||||||| ||||| ||||||||||||||||||||||||||||||||
Sbjct: 561 ttaagaaacatgggacaaagactgtctggaagagaaactaacaaaatctggtttgtacca 620

                                                                       
Query: 421 acagaattagagatgacttcaggcttttgtgtacagtaaacagcaggcagttaggcgggt 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 621 acagaattagagatgacttcaggcttttgtgtacagtaaacagcaggcagttaggtgggt 680

                      
Query: 481 gcctttgatgt 491
           |||||||||||
Sbjct: 681 gcctttgatgt 691


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: 22
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: 491
Length of database: 891
Length adjustment: 10
Effective length of query: 481
Effective length of database: 881
Effective search space:   423761
Effective search space used:   423761
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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