BAC Information

Click to search

BAC

Clone NameMSMg01-411B06
Chromosome17 (Build37)
Map Location 47,014,938 - 47,232,795
singlet/doubletdoublet
Overlap geneA330017A19Rik, Tbcc, Prph2, Ubr2, LOC100043385, EG240110
Upstream geneVegfa, Mrps18a, 1700027N10Rik, Mad2l1bp, Gtpbp2, Polh, Xpo5, Rpo1-1, Yipf3, Gm88, Tjap1, Egfl9, Abcc10, BC040756, Zfp318, LOC677168, Crip3, Slc22a7, EG328825, Ttbk1, BC048355, Parc, Srf, Ptk7, Klc4, Mrpl2, Cul7, BC011248, Klhdc3, Mea1, Ppp2r5d, Pex6, Gnmt, Tnrc5, Ptcra, 2310039H08Rik, Rpl7l1, BC032203
Downstream geneTrerf1, Mrps10, Guca1b, Guca1a, EG545208, 1700001C19Rik, AI661453, Tbn, Ccnd3, Bysl, Trfp, LOC668463, Usp49, 1110002E23Rik, Frs3, Pgc, LOC100043405, Tcfeb, Mdfi, Foxp4, LOC383250, 1700122O11Rik, 1700067P10Rik
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-411B06.T7 (MSMg01no411_b06.b1)MSMg01-411B06.TJ (MSMg01no411_b06.g1)
ACCAG508176AG508177
length759748
length of high quality
(start - end)
484 (73 - 556)242 (75 - 316)
definitionCHROMAT_FILE: MSMg01no411_b06.b1 PHD_FILE: MSMg01no411_b06.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:28:00 2005CHROMAT_FILE: MSMg01no411_b06.g1 PHD_FILE: MSMg01no411_b06.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:28:00 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(47,014,938 - 47,015,421)(47,232,584 - 47,232,795)
sequence
NNTTCTAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCG
CGGAATTCTCAAAATTGCTAGCACCGTGTCTGCCTGCAAGCTGCCATGCT
TCCCATCATGAGGATAACGGACGGAACCTCTGAAACTGTAAGCCAGCCCC
CAATGAAATGGCCGCTGTTTTAAGAGTTGCTACGGTCATGGTGTCTCTTT
GCAGCAATGAAACCCTAAGACAAACCATAAATTCTTAGGGGAGAAATAAA
TAAAAACAAGGTGGACAGCTCCTGTGGGTTTGAGGCTAGCCTGGTCTACA
GAGGGAGTTCTGGGAGCTTCTGATAGAAACCCTGTCTGAACCGCCCCCTC
AAAAAATCCCGTTCGCCCTAAGTTCACTCTACTTCGCAGTTGCTCCTCAG
ACATAAATGAAGTCTTTGTCACTTGAGTTAGGCTCGTGGCAACGAGTAGG
AAAAACACCATGCAATGCTCACTCTCCAAATCCCAACACCACAGAGATGC
AGTCAGGAGGACTGCGAGTTCAAGACTATCCTCAGCTACATAGTGACTCT
GGAGCCAACCCGGGCCATGTGAGACCCTGTCGCAAACACACAAACATATA
TGTGAAAGACGTCAGTCATTAATGCTGCTCCTCCGGACAAACCACCATAG
AGATGCCTGCAGCTCTGCCTAGACAAGCCAAGAGTTACCAGGCACCACAG
ACGCTGGGGCCTTCTANGAAAGAGAAACCTCAGGCCTGTGGCACACACCC
GTGTGTGTC
CGATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXTATTTTTTTTCCCTTTTAGTGTGTGT
GTGTGGGTTCGAGACAGGGTTTCTCTGTGTGGCCCTGGCTGTCCTGGAAC
TCACTCTGTAGACCAGACTAGCCTCGAACTCAGAAATCTGCCTGCCTCTG
CCTCCTGAGGGGAATTCTAATTTTCATTTTTTGAGAAGTCTTCCTTAGAT
TGCGTCAGTATGAAAAGTAAGAGACAGGCCTGGTTCACAGTACGGACTGA
GGGTTGACTGAGTGCCAATTTAGGGCTAAAGTCTTCTGTGCATATTTTCT
TAACTATTGGAGCATAGACATTCAGGATTCCAGAAGCCTGAGACAGATTC
AATAACTTAGTGTATGTCCAACAGTTACAGGCTTCCTGGGGTGCGGTGGG
TTGGCCTGATGCAGCTTGTATTCAAATCTAAATGTCGGTTCCTCAAGAGG
TGGTCGTCCCTGACAAGCAGACCATTATGTACTCAAAGGATGCCACGTGA
ACCTTCACCCCAAATTAACTGGTCAATAAAAGGCTAGAGCCTGTGATTGG
GCAGTGGAGGGAAAAAAGGTGGATTGGAGGCTCAAGCAAGGGGTGGAAGT
ACAGTGATTAATTAAACTGATNACGATGTACAGGTTTTGACCCTAACCCC
CGTGTTATGACAACCTTTATTTTCTCGGGTCCTATTCTTGCGGACAAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no411_b06.b1 MSMg01no411_b06.b1 CHROMAT_FILE:
MSMg01no411_b06.b1 PHD_FILE: MSMg01no411_b06.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:28:00 2005
         (484 letters)



>mm_chr17_47014738_47015621
          Length = 884

 Score =  920 bits (476), Expect = 0.0
 Identities = 482/484 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   accgtgtctgcctgcaagctgccatgcttcccatcatgaggataacggacggaacctctg 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 accgtgtctgcctgcaagctgccatgcttcccatcatgaggataacggacggaacctctg 260

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

                                                                       
Query: 121 gtctctttgcagcaatgaaaccctaagacaaaccataaattcttaggggagaaataaata 180
           || |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 gtttctttgcagcaatgaaaccctaagacaaaccataaattcttaggggagaaataaata 380

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

                                                                       
Query: 241 ggagcttctgatagaaaccctgtctgaaccgccccctcaaaaaatcccgttcgccctaag 300
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 ggagcttctgagagaaaccctgtctgaaccgccccctcaaaaaatcccgttcgccctaag 500

                                                                       
Query: 301 ttcactctacttcgcagttgctcctcagacataaatgaagtctttgtcacttgagttagg 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 ttcactctacttcgcagttgctcctcagacataaatgaagtctttgtcacttgagttagg 560

                                                                       
Query: 361 ctcgtggcaacgagtaggaaaaacaccatgcaatgctcactctccaaatcccaacaccac 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 ctcgtggcaacgagtaggaaaaacaccatgcaatgctcactctccaaatcccaacaccac 620

                                                                       
Query: 421 agagatgcagtcaggaggactgcgagttcaagactatcctcagctacatagtgactctgg 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 agagatgcagtcaggaggactgcgagttcaagactatcctcagctacatagtgactctgg 680

               
Query: 481 agcc 484
           ||||
Sbjct: 681 agcc 684


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: 24
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: 484
Length of database: 884
Length adjustment: 10
Effective length of query: 474
Effective length of database: 874
Effective search space:   414276
Effective search space used:   414276
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= MSMg01no411_b06.g1 MSMg01no411_b06.g1 CHROMAT_FILE:
MSMg01no411_b06.g1 PHD_FILE: MSMg01no411_b06.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:28:00 2005
         (242 letters)



>mm_chr17_47232249_47232890
          Length = 642

 Score =  333 bits (172), Expect = 7e-96
 Identities = 202/212 (95%)
 Strand = Plus / Minus

                                                                       
Query: 31  gggttcgagacagggtttctctgtgtggccctggctgtcctggaactcactctgtagacc 90
           |||||| ||||||||||||||||| |||||||||||||||||||| ||||||||||||||
Sbjct: 547 gggttcaagacagggtttctctgtatggccctggctgtcctggaattcactctgtagacc 488

                                                                       
Query: 91  agactagcctcgaactcagaaatctgcctgcctctgcctcctgaggggaattctaatttt 150
           || |||||||||||||||||||||  ||||| ||||||||||||||||||||||||||||
Sbjct: 487 aggctagcctcgaactcagaaatccacctgcttctgcctcctgaggggaattctaatttt 428

                                                                       
Query: 151 cattttttgagaagtcttccttagattgcgtcagtatgaaaagtaagagacaggcctggt 210
           ||||||||||||||||||||||||||||| ||||||||||||||||||||||||||  ||
Sbjct: 427 cattttttgagaagtcttccttagattgcatcagtatgaaaagtaagagacaggccccgt 368

                                           
Query: 211 tcacagtacggactgagggttgactgagtgcc 242
           ||||||||||||||||||||||||||||||||
Sbjct: 367 tcacagtacggactgagggttgactgagtgcc 336


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: 10
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: 242
Length of database: 642
Length adjustment: 9
Effective length of query: 233
Effective length of database: 633
Effective search space:   147489
Effective search space used:   147489
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)