BAC Information

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BAC

Clone NameMSMg01-065J19
Chromosome3 (Build37)
Map Location 78,896,261 - 79,050,736
singlet/doubletdoublet
Overlap geneRapgef2, LOC100041741
Upstream geneLOC626479, LOC100041691, LOC383883, LOC100041748, LOC100041716, LOC100041725, LOC100041766
Downstream geneLOC100041793, LOC667613, Ppid, Etfdh, 4930579G24Rik, Rxfp1, Tmem144, 1110032E23Rik
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-065J19.T7 (MSMg01no065_j19.b1)MSMg01-065J19.TJ (MSMg01no065_j19.g1)
ACCAG290780AG290781
length653651
length of high quality
(start - end)		544 (21 - 564)297 (54 - 350)
definitionCHROMAT_FILE: MSMg01no065_j19.b1 PHD_FILE: MSMg01no065_j19.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:11:10 2005CHROMAT_FILE: MSMg01no065_j19.g1 PHD_FILE: MSMg01no065_j19.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:11:10 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(78,896,261 - 78,896,799)(79,050,440 - 79,050,736)
sequence
AGCTCCTATATCCAGAGAATCCGCGGAATTCTGTTCTATGCACTTTAGCA
TAGCCCTAGAAAATACTAGAATCCTTACAAGTTCTACTATTCACAGAAAT
TACTTTGTCCAGGATTAAGATCTAAATATAAGAAAACAAAAACAGAGCAA
AACTCTGAGAGTTAGAGTTTGCAGAATGCTTACCAAATAAGTTGGTTTTC
ACAGTGATGGACAGGTGTGTGTTATTTCTGAGAATTTCCATTGCCTTTGA
AAGTTGGATATTTTCAAAATTTTGACCATTCACTTCTAATATCTAAAAAT
GAAGTTATTAAAGTCAACATCCTCACTGACTGAAGCAAAGGGGCTCTGAA
ATTCCCATGTACCCAGAGCTGAGTCTTCCCTCTCACCTGATCCCCGCGCT
TCAAGCCTGCTTCAGTGGCTTTGCTACACGAGTCAACGCTGTCCACGAAG
ATGCCAAAGCCCTTTTCAGAGCCTCCCAGTAAGATGAAGGGCAGAGGGGC
TTCCCGGGAAGGCTTTGTTAATGTCATCAGTCTTCGTTTGGCTTTAGCTG
CACATGCAATGTTCCACAGCCTTAGATGTCCACCCATTTTCTGTGAGAAT
TCAAGAAGAGTCGCATCAAGTCCAGGATAGGCATAGGAAGAGAAACCTGA
CCC

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXTCTGTGGACTAAATAGGAGACTGTCAGTCTGTAGTAGGCAGGTAGGA
TTTAGAAAGGACAGTTACAGTAGCTGGTTCCTTCCCTTACTGGAACCTCT
GTTATGTGGCTTTTCCTCTTTGTTCTCTAAGGAGGAAAGGAAGCAAGCAC
ACTGTATTATCGACTAACACACTGCCTTGAACATTTCCATCTTCTGAAAT
GCTTGCACTCGTAAGTTGGTTTTGTTTTGGGGAATGATTACATCTGGTGT
CACCAAGTGCAGATTACCATCGCTGCTCCCCCTCCCCCCCCCCCCCCCCG
GGTTTCCAGCCTTCACTTTAGATTGCTCCACAAACAGGGCGATACTCCCA
GCACTTAAAACTATTGTTTGGCAATGACGTTTGACTGCCTGTGTACTGAA
TCCGCTTAGTAAACCGTTTTTGGTGATACCATACTGAATTAATGACCCAC
TAACGATATAATTAACTTCTTCCCTCCCTCCCTCCTTTCCATCCTGTTAA
CTGGCGTAATGAATTTAGGTCTTTTTACTTTTTAAGCCACCATTATATTA
CTAATTTTTATCTCTCCTATAACCCCTCCCCTAGTGCAAACTTAACTTTG
A
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no065_j19.b1 MSMg01no065_j19.b1 CHROMAT_FILE:
MSMg01no065_j19.b1 PHD_FILE: MSMg01no065_j19.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:11:10 2005
         (544 letters)



>mm_chr3_78896056_78896999
          Length = 944

 Score = 1027 bits (531), Expect = 0.0
 Identities = 537/539 (99%)
 Strand = Plus / Plus

                                                                       
Query: 6   gaattctgttctatgcactttagcatagccctagaaaatactagaatccttacaagttct 65
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 206 gaattctgttctatgcattttagcatagccctagaaaatactagaatccttacaagttct 265

                                                                       
Query: 66  actattcacagaaattactttgtccaggattaagatctaaatataagaaaacaaaaacag 125
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 266 actattcacagaaattactttgtccaggattaagatctaaatataagaaaacaaaaacag 325

                                                                       
Query: 126 agcaaaactctgagagttagagtttgcagaatgcttaccaaataagttggttttcacagt 185
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 326 agcaaaactctgagagttagagtttgcagaatgcttaccaaataagttggttttcacagt 385

                                                                       
Query: 186 gatggacaggtgtgtgttatttctgagaatttccattgcctttgaaagttggatattttc 245
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 386 gatggacaggtgtgtgttatttctgagaatttccattgcctttgaaagttggatattttc 445

                                                                       
Query: 246 aaaattttgaccattcacttctaatatctaaaaatgaagttattaaagtcaacatcctca 305
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 446 aaaattttgaccattcacttctaatatctaaaaatgaagttattaaagtcaacatcctca 505

                                                                       
Query: 306 ctgactgaagcaaaggggctctgaaattcccatgtacccagagctgagtcttccctctca 365
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 506 ctgactgaagcaaaggggctctgaaattcccatgtacccagagctgagtcttccctctca 565

                                                                       
Query: 366 cctgatccccgcgcttcaagcctgcttcagtggctttgctacacgagtcaacgctgtcca 425
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 566 cctgatccccgcgcttcaagcctgcttcagtggctttgctacacgagtcaacgctgtcca 625

                                                                       
Query: 426 cgaagatgccaaagcccttttcagagcctcccagtaagatgaagggcagaggggcttccc 485
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 626 cgaagatgccaaagcccttttcagagcctcccagtaagatgaagggcagaggggcttccc 685

                                                                      
Query: 486 gggaaggctttgttaatgtcatcagtcttcgtttggctttagctgcacatgcaatgttc 544
           |||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 686 gggaaggctttgttaacgtcatcagtcttcgtttggctttagctgcacatgcaatgttc 744


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: 28
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: 544
Length of database: 944
Length adjustment: 10
Effective length of query: 534
Effective length of database: 934
Effective search space:   498756
Effective search space used:   498756
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= MSMg01no065_j19.g1 MSMg01no065_j19.g1 CHROMAT_FILE:
MSMg01no065_j19.g1 PHD_FILE: MSMg01no065_j19.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:11:10 2005
         (297 letters)



>mm_chr3_79050240_79050936
          Length = 697

 Score =  574 bits (297), Expect = e-168
 Identities = 297/297 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   tctgtggactaaataggagactgtcagtctgtagtaggcaggtaggatttagaaaggaca 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 497 tctgtggactaaataggagactgtcagtctgtagtaggcaggtaggatttagaaaggaca 438

                                                                       
Query: 61  gttacagtagctggttccttcccttactggaacctctgttatgtggcttttcctctttgt 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 437 gttacagtagctggttccttcccttactggaacctctgttatgtggcttttcctctttgt 378

                                                                       
Query: 121 tctctaaggaggaaaggaagcaagcacactgtattatcgactaacacactgccttgaaca 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 377 tctctaaggaggaaaggaagcaagcacactgtattatcgactaacacactgccttgaaca 318

                                                                       
Query: 181 tttccatcttctgaaatgcttgcactcgtaagttggttttgttttggggaatgattacat 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 317 tttccatcttctgaaatgcttgcactcgtaagttggttttgttttggggaatgattacat 258

                                                                    
Query: 241 ctggtgtcaccaagtgcagattaccatcgctgctccccctccccccccccccccccg 297
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 257 ctggtgtcaccaagtgcagattaccatcgctgctccccctccccccccccccccccg 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: 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: 297
Length of database: 697
Length adjustment: 9
Effective length of query: 288
Effective length of database: 688
Effective search space:   198144
Effective search space used:   198144
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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