BAC Information

Click to search

BAC

Clone NameMSMg01-414D06
Chromosome1 (Build37)
Map Location 195,461,587 - 195,614,060
singlet/doubletdoublet
Overlap genenone
Upstream geneHhat, A730013G03Rik, Sertad4, LOC100039677, Syt14, AA408296, Irf6, A130010J15Rik, Traf3ip3, Hsd11b1, G0s2, Lamb3, Camk1g
Downstream geneLOC667208, EG623172, Plxna2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-414D06.T7 (MSMg01no414_d06.b1)MSMg01-414D06.TJ (MSMg01no414_d06.g1)
ACCAG510555AG510556
length792790
length of high quality
(start - end)
472 (58 - 529)393 (74 - 466)
definitionCHROMAT_FILE: MSMg01no414_d06.b1 PHD_FILE: MSMg01no414_d06.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:32:09 2005CHROMAT_FILE: MSMg01no414_d06.g1 PHD_FILE: MSMg01no414_d06.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:32:09 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(195,613,639 - 195,614,060)(195,461,587 - 195,461,955)
sequence
AXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXGGCTCTTGCCGCCTGATATCTGTAGAGTTATGTGGAACCCACA
CTGAAAGACCAAGAAGCTAGTTTAGCATCAGTGGATATGGAGGCATATAG
GAAAAAGCAAAAGCAAAGAGACCCCTTTATTTCGGGTTCTCTGTTCTTAT
GACAGGCCTTTCCTCCTTAGCAAATTCTCAACAGAAAAGGCCAGAGGCTG
TTTCCTAGTTGATTCAAAACCCAGTCAAATTTGCAGTCAGGATCAACCAG
GATACCAGGAGGATTTCTTCCAATCCAGTAGCTACAGCAGCAGCAACTCT
TTCCTTTTGTTCCATTGGAGAAGGAAAAGCCAAAGAAAATCCCCTACTCA
AGCTGACAGAATGGGGCAAGTGGGGAAGACATGACTCACACTCTCCTGAG
AGCAGGACAGGAAGCAGCATAAGAGGCTATATGCCCTGGTCTTCTGTGCA
GCAATAACGTGGCAGAAGTCAGGTATGGTTTAGACAGAAGAATCAAGAAT
GAGAATTGTAGAAACTGGTTGCCCTCGGGAATCACACTTATCCCTTTGGG
TATTAGGTTTTTCCTCGAAAATGCCCTTTTGGGTGTCAACTGTTTTTACT
GACAGTAACTTGTATTAACTGTGCCATTATGTCTTACGGAAAACTTGGCT
TACCTTTCCCTCCTTTACTATGTTATAATTAGATAGCCTTCTCGGCATTT
GTAAAACCCTCAATTTTTCCTGTCAAGTATTCTTCTAGTCCT
ATGCTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXTTTCGTAATCATCCTGGAGATCAAATATTCCCAGAAC
CATTGTATGGAATCTCTAAAACAGGCATGAACACACACATTCAGAGTGCT
GATTCTGATCTTAATGGATGGTAATCTAGCCTTAGAGGCACCTGTCTACT
TATCCTTGCAGGGCCTGCCCTCCCCTGTTTGCCAGGCCCACCTCAATACC
ATTTCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCT
ATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTAG
ACTATGGTGGCCTATTAACTAGCCTTTTAGTCTACACTGGTCCTGCACTG
GAGGTGGTAGAATTCTTGTATCACACCAAGGCCAGTGTCAGCTCCCCATT
CTGAACTTGGAGCTGGATCATAGACAGAATGAATATGTACCTGGGGAAGG
ACTCATTAAGTAGACTGTGAGGAGTAGTTCTCTCCCCCTGACCCCCCTAT
GCTACCTGGGTTATAATCATTGTGGTGATAAGGGCATTTCTCTCTGTATA
TGCTGGCTACTTACTCCTGGGGGAATTTATTGACACTTGAAAAAACATCG
ATTTCTTCGGTGGTTGCCACTCGTTTTCATTTTTCTCTTTTTACATACAT
AAATCAAAAACCTCCTCTCTCTTGCTCCCTCTATTTGCCTTCCGTTCTCT
CATTTCTTTCTCACTAATTTACTTTCTCCCTATTACCATT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no414_d06.b1 MSMg01no414_d06.b1 CHROMAT_FILE:
MSMg01no414_d06.b1 PHD_FILE: MSMg01no414_d06.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:32:09 2005
         (472 letters)



>mm_chr1_195613189_195614060
          Length = 872

 Score =  712 bits (368), Expect = 0.0
 Identities = 409/428 (95%), Gaps = 11/428 (2%)
 Strand = Plus / Minus

                                                                       
Query: 50  gaccaagaagctagtttagcatcagtggatatggaggcatataggaaaaagcaaaagcaa 109
           ||||||||||||||||||||||||||||||||||||||||||||||||||||   ||   
Sbjct: 872 gaccaagaagctagtttagcatcagtggatatggaggcatataggaaaaagc---ag--- 819

                                                                       
Query: 110 agagacccctttatttcgggttctctgttcttatgacaggcctttcctccttagcaaatt 169
           |||||||||||||||| ||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 818 agagacccctttattttgggttctctgttcttatgacaggcctttccttcttagcaaatt 759

                                                                       
Query: 170 ctcaacagaaaaggccagaggctgtttcctagttgattcaaaacccagtcaaatttgcag 229
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 758 ctcaacagaaaaggccagaggctgtttcctagttgattcaaaacccagtcaaatttgcag 699

                                                                       
Query: 230 tcaggatcaac-----caggataccaggaggatttcttccaatccagtagctacagcagc 284
           |||||||||||     |||||| || ||||||||||||||| ||||||||||||||||||
Sbjct: 698 tcaggatcaaccaccacaggatgccgggaggatttcttccagtccagtagctacagcagc 639

                                                                       
Query: 285 agcaactctttccttttgttccattggagaaggaaaagccaaagaaaatcccctactcaa 344
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 638 agcaactctttccttttgttccattggagaaggaaaagccaaagaaaatcccctactcaa 579

                                                                       
Query: 345 gctgacagaatggggcaagtggggaagacatgactcacactctcctgagagcaggacagg 404
           |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 578 gctgacagaatggggcaagtgggggagacatgactcacactctcctgagagcaggacagg 519

                                                                       
Query: 405 aagcagcataagaggctatatgccctggtcttctgtgcagcaataacgtggcagaagtca 464
           ||||||||||||||||||||||||||||||||||||||||||||||| ||||| ||||||
Sbjct: 518 aagcagcataagaggctatatgccctggtcttctgtgcagcaataacatggcaaaagtca 459

                   
Query: 465 ggtatggt 472
           ||||||||
Sbjct: 458 ggtatggt 451


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: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 472
Length of database: 872
Length adjustment: 10
Effective length of query: 462
Effective length of database: 862
Effective search space:   398244
Effective search space used:   398244
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= MSMg01no414_d06.g1 MSMg01no414_d06.g1 CHROMAT_FILE:
MSMg01no414_d06.g1 PHD_FILE: MSMg01no414_d06.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:32:09 2005
         (393 letters)



>mm_chr1_195461387_195462179
          Length = 793

 Score =  609 bits (315), Expect = e-179
 Identities = 362/393 (92%), Gaps = 24/393 (6%)
 Strand = Plus / Plus

                                                                       
Query: 1   atcctggagatcaaatattcccagaaccattgtatggaatctctaaaacaggcatgaaca 60
           ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 atcctggagctcaaatattcccagaaccattgtatggaatctctaaaacaggcatgaaca 260

                                                                       
Query: 61  cacacattcagagtgctgattctgatcttaatggatggtaatctagccttagaggcacct 120
           |||||||||||||  |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 cacacattcagagcactgattctgatcttaatggatggtaatctagccttagaggcacct 320

                                                                       
Query: 121 gtctacttatccttgcagggcctgccctcccctgtttgccaggcccacctcaataccatt 180
           ||||||||||||||||||||||||||||||| |||||| |||||||||||||||||||||
Sbjct: 321 gtctacttatccttgcagggcctgccctcccttgtttgtcaggcccacctcaataccatt 380

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

                                                                       
Query: 241 tctatctatctatctatctatctatctatctatctagactatggtggcctattaactagc 300
           ||||||||||||                        ||||||||||| ||||||||||||
Sbjct: 441 tctatctatcta------------------------gactatggtggtctattaactagc 476

                                                                       
Query: 301 cttttagtctacactggtcctgcactggaggtggtagaattcttgtatcacaccaaggcc 360
           |||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct: 477 cttttagtctacactggtcctgcactggaggtggtagaattcttgtatcataccaaggcc 536

                                            
Query: 361 agtgtcagctccccattctgaacttggagctgg 393
           |||||||||||||||||||||||||||||||||
Sbjct: 537 agtgtcagctccccattctgaacttggagctgg 569


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: 78
Number of extensions: 29
Number of successful extensions: 29
Number of sequences better than 10.0: 1
Number of HSP's gapped: 24
Number of HSP's successfully gapped: 1
Length of query: 393
Length of database: 793
Length adjustment: 9
Effective length of query: 384
Effective length of database: 784
Effective search space:   301056
Effective search space used:   301056
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)