BAC Information

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BAC

Clone NameMSMg01-309K11
Chromosome6 (Build37)
Map Location 89,967,858 - 90,037,619
singlet/doubletdoublet
Overlap geneV1ra4, V1ra3, V1rb2
Upstream gene4933427D06Rik, Gm1965, LOC100043153, LOC100043159, EG624483, EG624491, LOC665547, EG624537, Gm839, 4930512J16Rik, Plxna1, Chchd6, Txnrd3, V1r-ps1, V1rb7, V1rb9, V1r-ps2, V1r-ps3, V1ra6, V1ra5, V1rb4, V1r-ps4, V1ra2, V1rb8
Downstream geneV1rb1, V1ra1, LOC625050, V1ra7, V1ra8, V1rb3, LOC100043191, V1r-ps5, V1ra9, BC048671, Chst13, Uroc1, Zxdc, Ccdc37, Klf15, Aldh1l1, Slc41a3, Iqsec1, LOC100043646, EG665685, Nup210
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-309K11.T7 (MSMg01no309_k11.b1)MSMg01-309K11.TJ (MSMg01no309_k11.g1)
ACCAG433377AG433378
length731726
length of high quality
(start - end)		319 (46 - 364)556 (77 - 632)
definitionCHROMAT_FILE: MSMg01no309_k11.b1 PHD_FILE: MSMg01no309_k11.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:51:18 2005CHROMAT_FILE: MSMg01no309_k11.g1 PHD_FILE: MSMg01no309_k11.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:51:18 2005
singlet/doubletdoubletdoublet
BLAST hitpluralunique
Map location.(89,967,858 - 89,968,169)(90,037,323 - 90,037,619)
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCCTTGTGGCTTGTATCTGAGGAGGGTTCATCCTCACCAAAGGGCTT
TCTTTAGAAATTATATATCTGTCTAGAATCTGCATGCCTTACCGATTCCT
TTTCTTGTTTAATTTTTCAAGACAGGGTTTCTCTGTGTACCCCTGGCTGT
TCTGGAACTCACTCTGTAGACCAGTTTGGCCTTGAACTCAAACATCCACA
AACCTCTGCCTTAGAAGTGTTAGAATTAAGGTGTCTGCCACCATTGCTCA
GCCATGATTTTTATGATATAAAATGATGTAGAATTGTATGGTCAGTGAAA
TTTGGAGGAAATTTATTGACTACACAACTGTTATCTGTGTCTTTCCTAGT
AAAGAGGTGTTATGATGCCAAGCAATCACATCACTGTAAGTTTTCTCTTT
GCTCCTGTGGAATTCCACTTCTAGAAAGACAAGGTTTCTAGGTGATTTCA
AAGCCACAACCCCTGAAGCAATGATGTTGAGAATATCGCTGAGGAGTCAC
ACCCTCTGTTCATGCCTGACTTTCCTAAGAGCTTCAGGTTTGCAGGGCTG
AGGTTTCTGAAGTGACCCTGACACTTGCACAACCTGTACCCACTCTTCAG
AGCTGACATCACACTGCCTGGCTGGTCTGATGAGGTAACATCTTCATAAA
AATCAAATTCCTTTCTCTTTATTTTCTTTCN

CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXTCTAGTCTGTCCCATCTGAACTGA
AACAATATAGTCAACACAACTTGCCAGTTTTCCCTTCAGGCAAAGTGAGT
ACAAACTAAACTTGTACTGCATAATTCATCTGTTTAACAGACCTCTGGTG
CTTTCCTTGAGCCCTTCCCTGAGCTATCTAGTGAGCTCTTATTACCTCTC
CAAACCAAGAGGCAGGAAGGCAGTCAGTTTGTACTTATGTACTCAGTCTC
CTCCTGAGTTCTTTCCCCGTGCCTTTTTTATTTTTATTTATTTTATTAAA
TCTATTTACTTATTTATTTATTTGATTGATTGATTGATTGATTGATTTAC
ACCAGAAGAGGGCACCAGACCCCATTAGAGATGGGAGATTAGAATGGCTC
ATTAGAGGAAAGCCTATCCCATCATCCAAGCACAGTGAGCCTTGATGACC
AGAGATAGTCTATGGTTTTAGAACTTTATTGTCGAAAGGCAGGGGGAAAG
AGAGAAGGTAAAAGAGAGAGACCAGCTATGCCAAGAGGAGAGAAGGGGGA
AAAGGAGAGAGAAGAAAGGCTAGAGAGTAAGAAAGAGAGTGGGAGAGGGA
GAGAGAGTAAAAGAGTGATAGGAGAGAGTGAGGTTTTTTTTTTTTTTTTT
NTTTGNTTTTTNTTTTTTTTGTTTTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no309_k11.b1 MSMg01no309_k11.b1 CHROMAT_FILE:
MSMg01no309_k11.b1 PHD_FILE: MSMg01no309_k11.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:51:18 2005
         (319 letters)



>mm_chr6_89967654_89968372
          Length = 719

 Score =  557 bits (288), Expect = e-163
 Identities = 306/312 (98%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattccttgtggcttgtatctgaggagggttcatcctcaccaaagggctttctttagaa 64
           |||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 205 gaattccttgtggcttgtatctgaggagggttcatcctcaccaaagggttttctttagaa 264

                                                                       
Query: 65  attatatatctgtctagaatctgcatgccttaccgattccttttcttgtttaatttttca 124
           ||||||||||||||||||||| ||||||||||||||||| ||||||||||||||||||||
Sbjct: 265 attatatatctgtctagaatccgcatgccttaccgattctttttcttgtttaatttttca 324

                                                                       
Query: 125 agacagggtttctctgtgtacccctggctgttctggaactcactctgtagaccagtttgg 184
           ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 agacaaggtttctctgtgtacccctggctgttctggaactcactctgtagaccagtttgg 384

                                                                       
Query: 185 ccttgaactcaaacatccacaaacctctgccttagaagtgttagaattaaggtgtctgcc 244
           ||||||||| |||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 ccttgaactaaaacatccgcaaacctctgccttagaagtgttagaattaaggtgtctgcc 444

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

                       
Query: 305 atttggaggaaa 316
           ||||||||||||
Sbjct: 505 atttggaggaaa 516


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: 319
Length of database: 719
Length adjustment: 9
Effective length of query: 310
Effective length of database: 710
Effective search space:   220100
Effective search space used:   220100
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= MSMg01no309_k11.g1 MSMg01no309_k11.g1 CHROMAT_FILE:
MSMg01no309_k11.g1 PHD_FILE: MSMg01no309_k11.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:51:18 2005
         (556 letters)



>mm_chr6_90037173_90038128
          Length = 956

 Score =  559 bits (289), Expect = e-163
 Identities = 295/297 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   tctagtctgtcccatctgaactgaaacaatatagtcaacacaacttgccagttttccctt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 447 tctagtctgtcccatctgaactgaaacaatatagtcaacacaacttgccagttttccctt 388

                                                                       
Query: 61  caggcaaagtgagtacaaactaaacttgtactgcataattcatctgtttaacagacctct 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 387 caggcaaagtgagtacaaactaaacttgtactgcataattcatctgtttaacagacctct 328

                                                                       
Query: 121 ggtgctttccttgagcccttccctgagctatctagtgagctcttattacctctccaaacc 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 327 ggtgctttccttgagcccttccctgagctatctagtgagctcttattacctctccaaacc 268

                                                                       
Query: 181 aagaggcaggaaggcagtcagtttgtacttatgtactcagtctcctcctgagttctttcc 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 267 aagaggcaggaaggcagtcagtttgtacttatgtactcagtctcctcctgagttctttcc 208

                                                                    
Query: 241 ccgtgccttttttatttttatttattttattaaatctatttacttatttatttattt 297
           | |||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 207 ctgtgccttttttatttttatttattttattaaatctatttatttatttatttattt 151


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: 37
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: 556
Length of database: 956
Length adjustment: 10
Effective length of query: 546
Effective length of database: 946
Effective search space:   516516
Effective search space used:   516516
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)


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