BAC Information

Click to search

BAC

Clone NameMSMg01-347F08
Chromosome9 (Build37)
Map Location 44,147,570 - 44,311,170
singlet/doubletdoublet
Overlap geneHmbs, Vps11, LOC100043172, Hyou1, LOC100043178, Slc37a4, Trappc4, Rps25, Ccdc84, Foxr1, Upk2, Bcl9l
Upstream geneLOC384931, Pvrl1, LOC100042548, Thy1, Usp2, Mfrp, Rnf26, LOC100042569, Mcam, Cbl, BC038167, Pdzd3, Nlrx1, Abcg4, Mizf, Tmem24, Dpagt1, H2afx
Downstream geneBlr1, Ddx6, LOC667406, LOC100042660, Treh, Phldb1, Arcn1, 1500035H01Rik, Tmem25, BC021608, Mll1, Atp5l, Ube4a, Cd3g, Cd3d, Cd3e, Eva1, A530065I17Rik, Amica1, Scn2b, Scn4b, Tmprss4, Il10ra, Tmprss13, Fxyd6, Fxyd2, Dscaml1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-347F08.T7 (MSMg01no347_f08.b1)MSMg01-347F08.TJ (MSMg01no347_f08.g1)
ACCAG459700AG459701
length788801
length of high quality
(start - end)		431 (49 - 479)432 (73 - 504)
definitionCHROMAT_FILE: MSMg01no347_f08.b1 PHD_FILE: MSMg01no347_f08.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:38:16 2005CHROMAT_FILE: MSMg01no347_f08.g1 PHD_FILE: MSMg01no347_f08.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:38:16 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(44,147,570 - 44,147,996)(44,310,739 - 44,311,170)
sequence
NCCCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCG
CGGAATTCCAGGTTGTCGAACTTTCTCTGTAGCTGAGCCACTCTCCTCAG
AGAGCTGGTTCCCACGGCACTGCTCAGAGAGAGTTTAGAATTAAACTTAA
CCCAGGCTGCCAACTGTTCTCCACTGTCCAGGCCTCTCTCCCCCGCACAC
TAGGCCCACTCACCTTTTCTCTGGCAAGGTTTCCAGGGTCTTTCCAATAA
ACTTTGGGTGAAAGACAACAGCATCACAAGGGTTTTCCCGTCTGCAAAGC
AAATGATGAAATAAAGGTATTAGCATTTGGAGATAGGGCTTAACTCTAGC
CCAGGCTGACCTAAAATTTTCTCTGTACCCCAGGCTAGCCTTTAACTCAC
AATAACCCTCCTGCCTCAGCTCTCTGAATGCTGAGATTATAGGCATGAGC
CACCAGGCCAAATTCATTTTATTTTCTTTGGAAAGGTTTTATATTTCTTT
CCTTGCTCTTTCCTTTTTGTTGCTGCTGTCGTTTATTTCCTGTTTTCCCT
TTTCCCTTTTCTTTCCCTCTTCAATCTTCTTCCCCTTCTTTTTTCTTTTT
TACCCTTTTTACCCTTTCCTTTATTTCCCTTTCTTTTTCTCCTTATCTTT
TCCACTCCCTTTCCCCTTCCTCTTTTTTGCTTTTCTTTCATCTTCTTCCA
TCCTTTTCACTTCCTTCCCATTCCTCTTTTCCTCATACCTTATTTCCACT
TTCCCTTTCCTTATCCATTTTTTTTTTCCCCTTTTTTT

TGCTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXAGTTGCATGGTTGAATGCTGCTGAATGA
CACAGTGACACAAGACTATAATCCCAGCACTTGGGAGCTATAGGCAAGAG
GGTTAGAAGGTCAAGGCCAGCCTCATCTATACAGTAAGCCTGAGGCTAAT
CTGTACTACATGAAACCTGGTCTTCACTGAATTGCATTCCATCTAAAAGA
GGCTGGTCAAGGGATCTTAGCTATTTCTTATCGCTCTGTATCTTTCAAAG
TTTCTCCAATGACACGGGATAATGTTACAGACACAAATTCGGGGAGACAG
GAGGGTTCTGGTCCCAGGAAGCAGTGACAGATTCTACCACTCAAGCATCC
ATACTGAGACTGAACATAGCTCATACAGCACTAGTTAGTCACATGGGGCC
TTGGCAGTCCCAGCCAGTTGTAGAGACTTCTTACAGGACACTGGTCAGTA
GGGTCTCCTCATTCCCTCTTGCTGACTGTTTCCTCCACTGTGACAGTCAT
CATTACACTTTCTTCATGTGTAGTTGTGAGGACTAAACTCAGTAGCAAAT
GTATCTTTCTTCTCCCTTTCCTTAATCCCGGCTTGAAACCAGCCTACAAT
TTAAGCTCTGGGGTAGTTCCTCCATGGCTAAGTTAGGTTGGAAACCCCTC
GATTGTTTCGGGCCTCCAGCCCCCTAATGCTTTTTGTTTTTCCATTTATT
GTTCTTTTTTTTTCAAATTTCATTTTCGCATCCCTTTTTTTTTTTCTTTT
T
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no347_f08.b1 MSMg01no347_f08.b1 CHROMAT_FILE:
MSMg01no347_f08.b1 PHD_FILE: MSMg01no347_f08.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:38:16 2005
         (431 letters)



>mm_chr9_44147366_44148196
          Length = 831

 Score =  779 bits (403), Expect = 0.0
 Identities = 421/427 (98%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattccaggttgtcgaactttctctgtagctgagccactctcctcagagagctggttcc 64
           ||||||||||| |  |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattccaggtgggggaactttctctgtagctgagccactctcctcagagagctggttcc 264

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

                                                                       
Query: 125 actgtccaggcctctctcccccgcacactaggcccactcaccttttctctggcaaggttt 184
           ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 actgtccagccctctctcccccgcacactaggcccactcaccttttctctggcaaggttt 384

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

                                                                       
Query: 245 tgcaaagcaaatgatgaaataaaggtattagcatttggagatagggcttaactctagccc 304
           ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 445 tgcaaagcaaatgatgaaataaaggtattagcatttggagataaggcttaactctagccc 504

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

                                                                       
Query: 365 gcctcagctctctgaatgctgagattataggcatgagccaccaggccaaattcattttat 424
           |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 565 gcctcagctccctgaatgctgagattataggcatgagccaccaggccaaattcattttat 624

                  
Query: 425 tttcttt 431
           |||||||
Sbjct: 625 tttcttt 631


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: 17
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: 431
Length of database: 831
Length adjustment: 9
Effective length of query: 422
Effective length of database: 822
Effective search space:   346884
Effective search space used:   346884
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= MSMg01no347_f08.g1 MSMg01no347_f08.g1 CHROMAT_FILE:
MSMg01no347_f08.g1 PHD_FILE: MSMg01no347_f08.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:38:16 2005
         (432 letters)



>mm_chr9_44310388_44311219
          Length = 832

 Score =  835 bits (432), Expect = 0.0
 Identities = 432/432 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   agttgcatggttgaatgctgctgaatgacacagtgacacaagactataatcccagcactt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 783 agttgcatggttgaatgctgctgaatgacacagtgacacaagactataatcccagcactt 724

                                                                       
Query: 61  gggagctataggcaagagggttagaaggtcaaggccagcctcatctatacagtaagcctg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 723 gggagctataggcaagagggttagaaggtcaaggccagcctcatctatacagtaagcctg 664

                                                                       
Query: 121 aggctaatctgtactacatgaaacctggtcttcactgaattgcattccatctaaaagagg 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 663 aggctaatctgtactacatgaaacctggtcttcactgaattgcattccatctaaaagagg 604

                                                                       
Query: 181 ctggtcaagggatcttagctatttcttatcgctctgtatctttcaaagtttctccaatga 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 603 ctggtcaagggatcttagctatttcttatcgctctgtatctttcaaagtttctccaatga 544

                                                                       
Query: 241 cacgggataatgttacagacacaaattcggggagacaggagggttctggtcccaggaagc 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 543 cacgggataatgttacagacacaaattcggggagacaggagggttctggtcccaggaagc 484

                                                                       
Query: 301 agtgacagattctaccactcaagcatccatactgagactgaacatagctcatacagcact 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 483 agtgacagattctaccactcaagcatccatactgagactgaacatagctcatacagcact 424

                                                                       
Query: 361 agttagtcacatggggccttggcagtcccagccagttgtagagacttcttacaggacact 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 423 agttagtcacatggggccttggcagtcccagccagttgtagagacttcttacaggacact 364

                       
Query: 421 ggtcagtagggt 432
           ||||||||||||
Sbjct: 363 ggtcagtagggt 352


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: 20
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: 432
Length of database: 832
Length adjustment: 9
Effective length of query: 423
Effective length of database: 823
Effective search space:   348129
Effective search space used:   348129
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)


| Home | SequenceCutter | Blast | Download |