BAC Information

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BAC

Clone NameMSMg01-262K10
Chromosome5 (Build37)
Map Location 13,584,545 - 13,731,737
singlet/doubletdoublet
Overlap geneSema3a
Upstream geneSema3d, 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 nameMSMg01-262K10.T7 (MSMg01no262_k10.b1)MSMg01-262K10.TJ (MSMg01no262_k10.g1)
ACCAG404694AG404695
length738805
length of high quality
(start - end)
580 (42 - 621)120 (70 - 189)
definitionCHROMAT_FILE: MSMg01no262_k10.b1 PHD_FILE: MSMg01no262_k10.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:59:21 2005CHROMAT_FILE: MSMg01no262_k10.g1 PHD_FILE: MSMg01no262_k10.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:59:21 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(13,584,545 - 13,585,116)(13,731,618 - 13,731,737)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATT
CTTAGATTGCTACATCAAAGTTAGACAATAGCATATTTTAAAAAGATTAC
ACATAGATATATAATCGCAATGTGTTGACATCAGACTCCTAAGTCCTTGA
TAGAATTGTGGGAGCAATGAGGAAATGCAGACACAATGAGGAAAATCATC
AGTCACGTGGATTCTAATATTCAAACTTACAACCACACTGGAGATCAGAA
CAATAGTTATGCTTATTGAAGAAATGGGTTGTTGTCTCTAAAATGAAGTC
TAGAGCTCCTCATGGTTAGATTTTTACTGACTGATTCCTAGTAGAAAACA
AGGCAGAATGTCTATTCATGATGGTTATGAGTCCCTTGGTTGCAGTGGCT
AGAGTTCACCGCATTTGTTTCTCAGTTTTGTCACCTTTCAGTCCCCGTAT
CCAGCCACACAGGCTGCAGATGCATATCTTCCTCTCTTGCCTACGGGATT
CAGTGCAGATTTGATTCTTCATTCACATCAGAGATTTAGAATAATATCTC
TTGAATGTAATTCTTTTAGGCGCACAAGACGACTAGATATAAGGAATGGA
GACCCACTGACTCACTGTTCTGACTTGCAGCACCATGGTAAGCCACTCTT
TACACTTCCAGTGCTAATGCCTTAGGTGTGCACATATTGTTCCAAGACCA
GTTACGAGGAAATGTGCCCTGGAATGAACAACATCTTG
CTGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXAATATTTGAGCCTGGGGAGCAAGTCTCATTC
AAATATCCACACTATAGCAAGAGAGAAACAGAGATAGGATGTAGAAGGGA
AAGGAGGAGAGGGATAGAATGAATAGGTAGCTAACAGAAGTGGGGAATGC
TCTCCTTATCCCCCCCCCCCTCGCTGCCTCTTCCTATCGCCTGTCTTACC
TCACTCTGTATGACCTATTACCTTTTCTGATCTCCTTGTACCCCTTCTCC
GCCTACCACCTTTTTCTGTGCCCCCCCTCCTCCCCCCCATCTCCCCCCCT
AGCCCTTTGCCCCCCCCCCCTCCCCCTTTTTATCCCTCTGCTCTCGGCAT
GCTGCTTCCCCCCCCCCCCGCTCCTTTTCCCCCGCCTCCCCCCCGCTCCC
CCTCCGTTCCCCCCCCTTTTTTTCCCTCCCCTTTCCCCCCTTGTTTCTCC
CTCCCCCCCCCCCCCTTACCCCCCCTTCCCCTTTCTCCCTTTCCCCCCCC
CCCCTCCCCTTCTTTTTTCCTTTCCCTCTCCCCCCCCCCCCTTTTTTTCC
CCCCCCCCTTTTCTCTCCCCCTCCCCCCTTTATCCCCCCCTCTTCTCCCC
CTTCCTTCCCCCCCTTTTTCCCCCTTTCCTCCCTTCCCTTTTTTCCCCCT
CTCCTCAATCCTTCTATCTCCTTCCCCGCTTTTTTCTTCCCCCCTCCCCT
CCTTTTTTCTTTTTTCCCCCCTTTCTTTTCCCCCGCCCTCTCCCCCCTTC
CCCTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no262_k10.b1 MSMg01no262_k10.b1 CHROMAT_FILE:
MSMg01no262_k10.b1 PHD_FILE: MSMg01no262_k10.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:59:21 2005
         (580 letters)



>mm_chr5_13584341_13585320
          Length = 980

 Score = 1029 bits (532), Expect = 0.0
 Identities = 562/572 (98%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcttagattgctacatcaaagttagacaatagcatattttaaaaagattacacata 64
           ||||||||||| |  |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattcttagactaatacatcaaagttagacaatagcatattttaaaaagattacacata 264

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

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

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

                                                                       
Query: 245 ctctaaaatgaagtctagagctcctcatggttagatttttactgactgattcctagtaga 304
           ||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct: 445 ctctaaaatgaagtctagagctcctcagggttagatttttactgactgattcctagtaga 504

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

                                                                       
Query: 365 tcaccgcatttgtttctcagttttgtcacctttcagtccccgtatccagccacacaggct 424
           |||  | ||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 565 tcagtgtatttgtttcccagttttgtcacctttcagtccccgtatccagccacacaggct 624

                                                                       
Query: 425 gcagatgcatatcttcctctcttgcctacgggattcagtgcagatttgattcttcattca 484
           |||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct: 625 gcagatgcatatcttcctctcttgcctatgggattcagtgcagatttgattcttcattca 684

                                                                       
Query: 485 catcagagatttagaataatatctcttgaatgtaattcttttaggcgcacaagacgacta 544
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct: 685 catcagagatttagaataatatctcttgaatgtaattcttttaggcgcacaagacgacaa 744

                                           
Query: 545 gatataaggaatggagacccactgactcactg 576
           ||||||||||||||||||||||||||||||||
Sbjct: 745 gatataaggaatggagacccactgactcactg 776


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: 580
Length of database: 980
Length adjustment: 10
Effective length of query: 570
Effective length of database: 970
Effective search space:   552900
Effective search space used:   552900
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= MSMg01no262_k10.g1 MSMg01no262_k10.g1 CHROMAT_FILE:
MSMg01no262_k10.g1 PHD_FILE: MSMg01no262_k10.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:59:21 2005
         (120 letters)



>mm_chr5_13731418_13731937
          Length = 520

 Score =  232 bits (120), Expect = 5e-66
 Identities = 120/120 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   aatatttgagcctggggagcaagtctcattcaaatatccacactatagcaagagagaaac 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 320 aatatttgagcctggggagcaagtctcattcaaatatccacactatagcaagagagaaac 261

                                                                       
Query: 61  agagataggatgtagaagggaaaggaggagagggatagaatgaataggtagctaacagaa 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 260 agagataggatgtagaagggaaaggaggagagggatagaatgaataggtagctaacagaa 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: 8
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: 120
Length of database: 520
Length adjustment: 8
Effective length of query: 112
Effective length of database: 512
Effective search space:    57344
Effective search space used:    57344
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)