BAC Information

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BAC

Clone NameMSMg01-083J16
Chromosome5 (Build37)
Map Location 14,049,654 - 14,214,184
singlet/doubletdoublet
Overlap geneSema3e, LOC100042957
Upstream geneLOC625989, LOC670717, Sema3a, LOC208055, LOC626053, Speer3, EG626067, LOC668085, LOC384149, LOC384148
Downstream genePclo, ENSMUSG00000033219, LOC624245, Speer8-ps1, Speer4c, Speer4d, 4930572O03Rik, Speer7-ps1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-083J16.T7 (MSMg01no083_j16.b1)MSMg01-083J16.TJ (MSMg01no083_j16.g1)
ACCAG303677AG303678
length722717
length of high quality
(start - end)
380 (68 - 447)291 (69 - 359)
definitionCHROMAT_FILE: MSMg01no083_j16.b1 PHD_FILE: MSMg01no083_j16.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:33:22 2005CHROMAT_FILE: MSMg01no083_j16.g1 PHD_FILE: MSMg01no083_j16.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:33:23 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(14,213,805 - 14,214,184)(14,049,654 - 14,049,944)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTCCAGAAATCCGCGGAATTC
ACAGTGGTTACCAGAGATGCACAGGGCCTGTGTGAACTCAACGAGACAAA
ATTCCAACATGGAGAGGGCAGGTGGACAAGGAGTCCCACGTCTAGAGGAG
GAGGTATGAGCAATTGATTCCTTGCCAGTTGAAAACCATAGCTCCAAGAG
TATATTGGCAACACAAACTGGATTTGATGGGGATGAGAAAGAAGGACACA
GACTTGGGTGGTTAGGGATAGGAATGTGATCTGGAAAGAGTTGGGAGAGG
AGACAGCATGAACAAAACTCTTTGTGTGAAAATTTTTTTCAAAGATTAGA
AATGATACTGTTCATCTTGTGACTATTGCTCTCTATCAGTATTTTCTCAT
TATGTTAGTCTTCATGAGGCATTCATTATCCATTGTGTGTCACTCAGGGA
ACATAGACTCTAGGAATGATTATAAGATGGCAGGTCCTCTTTGTGCTGGG
CTCCTGATTTAATCCACCAAAACAGAACATGGGTGGTATAAGATACATTC
CCCGTTATTACATTCTTCTTTGTCCGGGTAAGCAAGGTCATGTTGGACGA
ATCTCAATGGAGGGAGCTCAATTTTTTCCGGCTCAATTGTTGCCTGGTTA
TTCGACGAAGTGATTTCATTTTAACGCCTCATCGGGGGTGGATCGTGGGT
GGTTGAATATGGTATCATGTGC
GATGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXTCTTTAAGCTACGTTAAGTTAAACGAACAGAC
TTTTAGACTTTGTTTCTGTCATCCTTGGAACCACTGATTTTATGTTTAAG
AAATTCTTGCACAAATTTAACTGCTTGGTGTTAGGACTAAAAATTTTTGT
TCTAAATAGTTGAAATAGGGACTGTAGATGACAAAAAATAATTAACATAG
AAAACTACTGGTATTCTTAATGCAAAAGCATTGCTAATCGTATTCGTCCG
ATTATTTTTAGACCTGAATGCTTGTTCTCATGTTACTGTAAGCCTGTTAT
CTATGCAGATGGTAAATAGGGCTCTTGTTGGTTCAGTGTTGGGTGAAATG
AGTAAAGAAAGAGTACTTTATAAAACGGTAACCCGTTCATATTGTATTGT
GGTTTTACAGTGGTTTTCTTAAAACAGTGCATTATTTGTAGGCTTGTGGT
TAGCTTTAATAAAGCTTCTTTCATAAAGGAGAATTGATCATTCTTTCCTA
ATGTAATATTTCTGTATATCATTAGCATATATTCCTATATGTTATTTTCT
TATTACTAGTAATGATTTCTGCTCGTAACTTTTTTCCTTGTTATCTTATA
TTGTAATTATTCTTCTTTGCCTTCATATTATATAATTACCGGCTTTATCC
CTCTTTCCCCATCCGAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no083_j16.b1 MSMg01no083_j16.b1 CHROMAT_FILE:
MSMg01no083_j16.b1 PHD_FILE: MSMg01no083_j16.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:33:22 2005
         (380 letters)



>mm_chr5_14213444_14214223
          Length = 780

 Score =  712 bits (368), Expect = 0.0
 Identities = 377/380 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   tgcacagggcctgtgtgaactcaacgagacaaaattccaacatggagagggcaggtggac 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 741 tgcacagggcctgtgtgaactcaacgagacaaaattccaacatggagagggcaggtggac 682

                                                                       
Query: 61  aaggagtcccacgtctagaggaggaggtatgagcaattgattccttgccagttgaaaacc 120
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 aaggagtcccatgtctagaggaggaggtatgagcaattgattccttgccagttgaaaacc 622

                                                                       
Query: 121 atagctccaagagtatattggcaacacaaactggatttgatggggatgagaaagaaggac 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 atagctccaagagtatattggcaacacaaactggatttgatggggatgagaaagaaggac 562

                                                                       
Query: 181 acagacttgggtggttagggataggaatgtgatctggaaagagttgggagaggagacagc 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 acagacttgggtggttagggataggaatgtgatctggaaagagttgggagaggagacagc 502

                                                                       
Query: 241 atgaacaaaactctttgtgtgaaaatttttttcaaagattagaaatgatactgttcatct 300
           ||||||||||| | ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 atgaacaaaacacattgtgtgaaaatttttttcaaagattagaaatgatactgttcatct 442

                                                                       
Query: 301 tgtgactattgctctctatcagtattttctcattatgttagtcttcatgaggcattcatt 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 tgtgactattgctctctatcagtattttctcattatgttagtcttcatgaggcattcatt 382

                               
Query: 361 atccattgtgtgtcactcag 380
           ||||||||||||||||||||
Sbjct: 381 atccattgtgtgtcactcag 362


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: 17
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: 380
Length of database: 780
Length adjustment: 9
Effective length of query: 371
Effective length of database: 771
Effective search space:   286041
Effective search space used:   286041
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= MSMg01no083_j16.g1 MSMg01no083_j16.g1 CHROMAT_FILE:
MSMg01no083_j16.g1 PHD_FILE: MSMg01no083_j16.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:33:23 2005
         (291 letters)



>mm_chr5_14049454_14050144
          Length = 691

 Score =  540 bits (279), Expect = e-158
 Identities = 288/291 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   tctttaagctacgttaagttaaacgaacagacttttagactttgtttctgtcatccttgg 60
           ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 tctttaagcaacgttaagttaaacgaacagacttttagactttgtttctgtcatccttgg 260

                                                                       
Query: 61  aaccactgattttatgtttaagaaattcttgcacaaatttaactgcttggtgttaggact 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 aaccactgattttatgtttaagaaattcttgcacaaatttaactgcttggtgttaggact 320

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

                                                                       
Query: 181 agaaaactactggtattcttaatgcaaaagcattgctaatcgtattcgtccgattatttt 240
           ||||||||||||||||||||||||||||||||||||||||||||||| || |||||||||
Sbjct: 381 agaaaactactggtattcttaatgcaaaagcattgctaatcgtattcatctgattatttt 440

                                                              
Query: 241 tagacctgaatgcttgttctcatgttactgtaagcctgttatctatgcaga 291
           |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 tagacctgaatgcttgttctcatgttactgtaagcctgttatctatgcaga 491


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: 14
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: 291
Length of database: 691
Length adjustment: 9
Effective length of query: 282
Effective length of database: 682
Effective search space:   192324
Effective search space used:   192324
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)