BAC Information

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BAC

Clone NameMSMg01-235P08
Chromosome6 (Build37)6 (Build37)
Map Location 89,885,178 - 89,885,52189,967,864 - 89,968,369
singlet/doubletsingletsinglet
Overlap geneV1ra2
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
Downstream geneV1rb8, V1ra4, V1ra3, V1rb2, V1rb1, V1ra1, LOC625050, V1ra7, V1ra8, V1rb3, LOC100043191, V1r-ps5, V1ra9, BC048671, Chst13, Uroc1, Zxdc, Ccdc37, Klf15, Aldh1l1, Slc41a3, Iqsec1, LOC100043646, EG665685
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-235P08.T7 (MSMg01no235_p08.b1)MSMg01-235P08.TJ (MSMg01no235_p08.g1)
ACCAG401360AG401361
length729729
length of high quality
(start - end)		344 (72 - 415)506 (77 - 582)
definitionCHROMAT_FILE: MSMg01no235_p08.b1 PHD_FILE: MSMg01no235_p08.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:53:24 2005CHROMAT_FILE: MSMg01no235_p08.g1 PHD_FILE: MSMg01no235_p08.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:53:24 2005
singlet/doubletsingletsinglet
BLAST hitpluralplural
Map location.(89,885,178 - 89,885,521)(89,967,864 - 89,968,369)
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCTTACAGTTTCCGATTAGACATTAATTTAGTAAAACACCATGACCA
AACCCAAGCTGGCTGAGAAAGCCTCTATTGCATGTTCCTGCTAGAAATAC
ATCATGCAGGATAGTTGGGGGAAGAAGTTAAGGCAGAGACCTATAGGTAG
GAACTGATACACAATCATGAAAGAGTGCTATTTACTAGCTTTTTGCTTCA
TGGTTTTCCTTGTCTGTATTAGTAAGTAACTCCCAGCTTGGGGCCTATAC
TCACACTAAGCTGGGCTTTCTCTTCTAGATAACCAATCTAAATTCACCAC
AAATATGTCCACATCTCAATCTGGTAGGGGAATTATCTGAACTGATATTA
CCTTACCTCTTTCTCACCGACTTACTGTGTGTCAAAACAAAACAAAACAA
AAACCAAAAACCAAAAACCAAAAACCAAAAATCAACCCCCCCCAAAAAGA
CACAAAGAAACAAAGAAACCAAAATAGCATATAGCTGGAAAAGCTGTATC
CTTGTAAGGTTGACACAAAAACACATCACTGTTACACTATAAACTTGTCT
CCTTTTGTTCTCAAGATATCATACTAATATCCACATTTCAAGATAAAAAT
TCAATATACTTTAATAGCTTAATCTCCCCTTAATCTTCCAATCTTGCTTA
ACATGCAAAGCCTCTCCTAAATTTTCATN

CGATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXCTTGTGGCTTGTATCTGAGGAGGG
TTCATCCTCACCAAAGGGCTTTCTTTAGAAATTATATATCTGTCTAGAAT
CTGCATGCCTTACCGATTCCTTTTCTTGTTTAATTTTTCAAGACAGGGTT
TCTCTGTGTACCCCTGGCTGTTCTGGAACTCACTCTGTAGACCAGTTTGG
CCTTGAACTCAAACATCCACAAACCTCTGCCTTAGAAGTGTTAGAATTAA
GGTGTCTGCCACCATTGCTCAGCCATGATTTTTATGATATAAAATGATGT
AGAATTGTATGGTCAGTGAAATTTGCAGGAAACAGAATGACTAGAGAAAT
GTTATCTGTGTCTTTCCCACCACAGAGGTGTTATGATGGCAAGCAATCAC
ATCACTGTAAGTTTTCTCTTTGCTCCTGTGGAATTCCACTTCTAGAAAGA
CAAGGTTTCTAGGTGATTTCAAAGCCACAACCCCTGAAGCAATGATGTTG
AGAATATCGCTGAGGAGTCACACCCTCTGTTCATGCCTGACTTTCCTAAG
AGCTTCAGGTTTGCAGGGCTGAGGTTTCTGAAGTGACCCTGACACTTGCA
CAACCTGGACCCACTCTTCAGAGCTGACATCACACTGCCTGGTTGTCCTG
ATGAGGTAACATTCTTCATAAAATCACAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no235_p08.b1 MSMg01no235_p08.b1 CHROMAT_FILE:
MSMg01no235_p08.b1 PHD_FILE: MSMg01no235_p08.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:53:24 2005
         (344 letters)



>mm_chr6_89884978_89885721
          Length = 744

 Score =  526 bits (272), Expect = e-154
 Identities = 326/344 (94%)
 Strand = Plus / Plus

                                                                       
Query: 1   gacattaatttagtaaaacaccatgaccaaacccaagctggctgagaaagcctctattgc 60
           |||||||| ||||||||||||||| |||||| ||| |||||||| |||||||| ||||||
Sbjct: 201 gacattaacttagtaaaacaccattaccaaatccatgctggctgggaaagcctttattgc 260

                                                                       
Query: 61  atgttcctgctagaaatacatcatgcaggatagttgggggaagaagttaaggcagagacc 120
           ||||| ||||||| |||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 261 atgttactgctagtaatacatcatccaggatagttgggggaagaagttaaggcagagacc 320

                                                                       
Query: 121 tataggtaggaactgatacacaatcatgaaagagtgctatttactagctttttgcttcat 180
           ||||||||||||||||| ||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 321 tataggtaggaactgatgcacaatcatgaaaaagtgctatttactagctttttgcttcat 380

                                                                       
Query: 181 ggttttccttgtctgtattagtaagtaactcccagcttggggcctatactcacactaagc 240
           |||||||||||||||||||  |||||||||||||||| |||||||||| |||||||||||
Sbjct: 381 ggttttccttgtctgtattcttaagtaactcccagctcggggcctatattcacactaagc 440

                                                                       
Query: 241 tgggctttctcttctagataaccaatctaaattcaccacaaatatgtccacatctcaatc 300
           |||||||||||  ||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 441 tgggctttctcacctagataaccaatctaaattcaccacaaatatgcccacatctcaatc 500

                                                       
Query: 301 tggtaggggaattatctgaactgatattaccttacctctttctc 344
           ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 tggtaggggaattatctgaactgatattaccttacctctttctc 544


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: 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: 344
Length of database: 744
Length adjustment: 9
Effective length of query: 335
Effective length of database: 735
Effective search space:   246225
Effective search space used:   246225
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= MSMg01no235_p08.g1 MSMg01no235_p08.g1 CHROMAT_FILE:
MSMg01no235_p08.g1 PHD_FILE: MSMg01no235_p08.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:53:24 2005
         (506 letters)



>mm_chr6_89967664_89968569
          Length = 906

 Score =  886 bits (458), Expect = 0.0
 Identities = 494/506 (97%)
 Strand = Plus / Plus

                                                                       
Query: 1   cttgtggcttgtatctgaggagggttcatcctcaccaaagggctttctttagaaattata 60
           |||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 201 cttgtggcttgtatctgaggagggttcatcctcaccaaagggttttctttagaaattata 260

                                                                       
Query: 61  tatctgtctagaatctgcatgccttaccgattccttttcttgtttaatttttcaagacag 120
           ||||||||||||||| ||||||||||||||||| ||||||||||||||||||||||||| 
Sbjct: 261 tatctgtctagaatccgcatgccttaccgattctttttcttgtttaatttttcaagacaa 320

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

                                                                       
Query: 181 actcaaacatccacaaacctctgccttagaagtgttagaattaaggtgtctgccaccatt 240
           ||| |||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 actaaaacatccgcaaacctctgccttagaagtgttagaattaaggtgtctgccaccatt 440

                                                                       
Query: 241 gctcagccatgatttttatgatataaaatgatgtagaattgtatggtcagtgaaatttgc 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| 
Sbjct: 441 gctcagccatgatttttatgatataaaatgatgtagaattgtatggtcagtgaaatttgg 500

                                                                       
Query: 301 aggaaacagaatgactagagaaatgttatctgtgtctttcccaccacagaggtgttatga 360
           ||||||||||||||||||||||||||||||||| ||||||| |  | |||||||||||||
Sbjct: 501 aggaaacagaatgactagagaaatgttatctgtttctttcctagtaaagaggtgttatga 560

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

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

                                     
Query: 481 tcgctgaggagtcacaccctctgttc 506
           ||||||||||||||||||||||||||
Sbjct: 681 tcgctgaggagtcacaccctctgttc 706


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: 21
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 506
Length of database: 906
Length adjustment: 10
Effective length of query: 496
Effective length of database: 896
Effective search space:   444416
Effective search space used:   444416
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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