BAC Information

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BAC

Clone NameMSMg01-234I20
Chromosome2 (Build37)
Map Location 163,920,657 - 163,943,406
singlet/doubletdoublet
Overlap geneStk4
Upstream geneLOC269389, Jph2, 3230401D17Rik, LOC100043708, Gdap1l1, D930001I22Rik, LOC100043899, Hnf4a, 5830472M02Rik, Serinc3, Pkig, Ada, Wisp2, Kcnk15, Rims4, Ywhab, LOC381404, Tomm34
Downstream geneKcns1, Wfdc5, Wfdc12, Wfdc15a, Wfdc15b, Svs2, Svs3b, Svs4, Svs3a, Svs6, Svs5, Slpi, Matn4, Rbpjl, Sdc4, 2610042O14Rik, 1700126L10Rik, Dbndd2, Pigt, LOC670507, Wfdc2, OTTMUSG00000016288, Wfdc6a, Spinlw1, Wfdc8, Wfdc6b, Wfdc16, OTTMUSG00000001088, Wfdc10, LOC629761, Wfdc13, Spint4, OTTMUSG00000016293, Wfdc3, Dnttip1, Ube2c, Tnnc2, Snx21, Acot8, Zswim3, Zswim1, 1700020C07Rik, Neurl2, Ctsa, Pltp, F730014I05Rik, Zfp335, LOC629777, Mmp9, Slc12a5, Ncoa5, Cd40, Cdh22
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-234I20.T7 (MSMg01no234_i20.b1)MSMg01-234I20.TJ (MSMg01no234_i20.g1)
ACCAG400408AG400409
length732734
length of high quality
(start - end)		685 (46 - 730)171 (485 - 655)
definitionCHROMAT_FILE: MSMg01no234_i20.b1 PHD_FILE: MSMg01no234_i20.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:51:34 2005CHROMAT_FILE: MSMg01no234_i20.g1 PHD_FILE: MSMg01no234_i20.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:51:34 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(163,920,657 - 163,921,146)(163,943,236 - 163,943,406)
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCTCTGAGATCTTCTTACCTCAGCTCCCTGAGGACTCAGATTACAAG
TGTTAGGCACCTGTGTGGTGATTTCTTAAAAAATTATTTTTATTATTGTT
ATGTAACTCAGGTTAGGTGCTTAATTATTGAGACAGAGTACCGCAGCATT
GTCTTGATCTTGAGCTATGTTGTTCAGGTGGCCTTTGGAGTAGCTGAGGT
AGAGGTGTCCCTGGCTTGGTAGTCACTTGAACATTCTACTTTTGTGTGTA
TGGTTTAGGGTACTCACATGTAAGGTAAATGTCTAGAAAGATACTTGGTT
AGAGAGATATAGATATTTTAAAAAAGTTTACTAAATATTGCCAGTTGGTG
AGGTTGTACTTTCTCATACTCCAGTGATCAGATATTTCATGTATGTTTTT
TATTAGTACTAGTTTAAATTTAAAAAATTTTAATAACTGTATTTTAATAA
TTGAAAATCTTTATGGTTCTTGGCCATTTGACTTTCTTTAGTGACTCATC
TGATTATGCCTCGAGTATTGTTTCTAGATAAAGGCACTGTTTTTTTTAAA
TGTTTTTATTTATTCCTTGAGAATTTTATACAGTATATTCTAATCATATT
TTTCCCCTTTCCAGGTTCTCCCACAGCTCCCACCCACCCACCCACTACAT
GGGGNTTGTTGTTGTTGTTAGTTATTTAATTN

CATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXTCCCGAAAATCATCAGAGAGCCAGAAACATTCNTGCC
AAAGCTGTTGATCTGATTTTCCTCCTCATAAAGGTCAAAGTATTCAAGGA
AAGACGGTTTTGCAGGCTGCATGGTCTCATCTCTTCCTGAAAACCAAGAA
ACACAGAAGGTGAGAAGGAACACAGGTATATGTGTGTGGTCAGGACGCCC
ACAATGTCTATAGTCTCTGGGTCAATTCTTTCTCCTGGATAAAGACCTCT
TTATGAAAGACTCTGATGATTTTTTTTATAACACACAAAGNCNCACTCAA
AANACNTCTTATTTTTTTTTACCCGNGACCCCNNNCCGNAANAANANANA
NGNNNNNCCCAGAGNCANNANNCCAAAACNGAAAGNAAAAAGCACTGCGG
GGGGGCGGAGAAAGCTCCAAGNAACAANTATAGNATTGTTGTTCATTTTA
TTATTATTGGTTTCCTATAGCAAATAACTCTTGAGATATTTATATTAAAG
ATATTTCTGAAACAAAAGTATTTATATCTATCACAGTCACTATTCCTGTA
AGCATCACAGCAGACAGACAATGCCACGGGAGCAACTGCTCCTCAGTAAG
CTGAAAGGATGAGAAATATTATTTATATATAAATACACACACACACACAC
ACATGCATACATACATACCCACACACAAGTTAAG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no234_i20.b1 MSMg01no234_i20.b1 CHROMAT_FILE:
MSMg01no234_i20.b1 PHD_FILE: MSMg01no234_i20.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:51:34 2005
         (685 letters)



>mm_chr2_163920453_163921537
          Length = 1085

 Score =  940 bits (486), Expect = 0.0
 Identities = 489/490 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattctctgagatcttcttacctcagctccctgaggactcagattacaagtgttaggca 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattctctgagatcttcttacctcagctccctgaggactcagattacaagtgttaggca 264

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

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

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

                                                                       
Query: 245 ttttgtgtgtatggtttagggtactcacatgtaaggtaaatgtctagaaagatacttggt 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 445 ttttgtgtgtatggtttagggtactcacatgtaaggtaaatgtctagaaagatacttggt 504

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

                                                                       
Query: 365 tttctcatactccagtgatcagatatttcatgtatgttttttattagtactagtttaaat 424
           |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 565 tttctcatactccagtgatcagatgtttcatgtatgttttttattagtactagtttaaat 624

                                                                       
Query: 425 ttaaaaaattttaataactgtattttaataattgaaaatctttatggttcttggccattt 484
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 625 ttaaaaaattttaataactgtattttaataattgaaaatctttatggttcttggccattt 684

                     
Query: 485 gactttcttt 494
           ||||||||||
Sbjct: 685 gactttcttt 694


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: 33
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2
Number of HSP's successfully gapped: 1
Length of query: 685
Length of database: 1085
Length adjustment: 10
Effective length of query: 675
Effective length of database: 1075
Effective search space:   725625
Effective search space used:   725625
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= MSMg01no234_i20.g1 MSMg01no234_i20.g1 CHROMAT_FILE:
MSMg01no234_i20.g1 PHD_FILE: MSMg01no234_i20.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:51:34 2005
         (171 letters)



>mm_chr2_163943036_163943606
          Length = 571

 Score =  308 bits (159), Expect = 2e-88
 Identities = 168/171 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   attgttgttcattttattattattggtttcctatagcaaataactcttgagatatttata 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 371 attgttgttcattttattattattggtttcctatagcaaataactcttgagatatttata 312

                                                                       
Query: 61  ttaaagatatttctgaaacaaaagtatttatatctatcacagtcactattcctgtaagca 120
           ||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct: 311 ttaaagatatttctgaaacaaaagtatttgtatctatcacagtcactattcctgtaagca 252

                                                              
Query: 121 tcacagcagacagacaatgccacgggagcaactgctcctcagtaagctgaa 171
           ||||||||||||||||| |||||||||||||| ||||||||||||||||||
Sbjct: 251 tcacagcagacagacaacgccacgggagcaaccgctcctcagtaagctgaa 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: 7
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: 171
Length of database: 571
Length adjustment: 8
Effective length of query: 163
Effective length of database: 563
Effective search space:    91769
Effective search space used:    91769
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)


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