BAC Information

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BAC

Clone NameMSMg01-069M03
Chromosome9 (Build37)
Map Location 41,546,396 - 41,732,436
singlet/doubletdoublet
Overlap gene6720432D03Rik
Upstream gene9030425E11Rik, LOC100043071, Hspa8, Bsx, 4931429I11Rik, Crtam, 2810457I06Rik, LOC628495, LOC100042464, EG667566
Downstream geneSorl1, Sc5d, Tecta, Tbcel, Grik4
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-069M03.T7 (MSMg01no069_m03.b1)MSMg01-069M03.TJ (MSMg01no069_m03.g1)
ACCAG293940AG293941
length680694
length of high quality
(start - end)
315 (31 - 345)248 (69 - 316)
definitionCHROMAT_FILE: MSMg01no069_m03.b1 PHD_FILE: MSMg01no069_m03.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:16:36 2005CHROMAT_FILE: MSMg01no069_m03.g1 PHD_FILE: MSMg01no069_m03.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:16:36 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(41,732,127 - 41,732,436)(41,546,396 - 41,546,641)
sequence
CGCTAATACACTCACTATAGTTCAGAGGATCCGCGGAATTCTTATTGACT
GACGAATTCTAAGCCATTCAGACGTCTCCTCATACCTCCTTTTGGACCCT
CTGGCAGCCTTGCTGCTGTTAACTGACAGCTGGATGCTGGTTCCTGGCCC
ACTAGGCTCCACTCTGTTGGAACCTCAAGATCTGTCTTCAGGGGTTCAAC
GCAAGGGTCTGCATGTGCATCTGCTGCAGTGAGACACATCTGTAACTATT
TTTTCCCCTGGAGATCCCTCTTTGTGGATGTATGCTACAACATTACTCTT
CTCTCTCTGTATGCCTACAGCTGCCCTACACTAACAGTTCCCACCTTTTT
TTTGTGCCCACTCTCCCAAATGGGGCTAGTCCTGGTTCAGATTTCCTCTC
TGAATCAATGAGAAAAAAACACATCCAATTTTGTAGAGGGTAAAATTGCA
TATTTAATTTTTTTTGTCTGAATGATTTGATGAGATGATTTTATTTGAAT
ATATTGCAAGCAAAAGACAAGAGTGTGAAGTTATAATAACACCTCTTCTA
GCTAGGGAATAGTGACGCCCACGGTGTGCAGGTAATCAAGATATTGCCCC
ATACAAATGCTCGAAACCTGGTCCACCAGCGGATTCCGGATTCTGTCAGA
TTGATATCACTTATACAAGTCTTATTTGTA
ATGAAGTGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXTTTCGCGAAATTCCACTCCCCACCAAATCAAAGGACAGGAGTCAA
GGTTTAATTCTTCTATCCCCTCTCTAAGCATAAGTTGTCCTCATATGGCG
ATGTCTTCTGGAATATAATTCTATTCTTTTTGAACGTGGGACCTTCAGGA
TGTCTTTGGTCACTCCTGGTACACAGAATAGAACTTCAGTATAGGGAAAC
ACAGACGATCAATAGGCCTACATGGTCTGTCACATGCTGAGCCTTAGCAA
GCAACATGAACCTATTATATTGGCAAAGGCTAGACTTGAGGCTGGGGGAG
ACTGTCTTTGAGGGCACCAAACTCACGAATAGGAAACTGTCTGGTATCAG
AGCATACTCTGCACAGGGCAGCTAAACTGTGAGACTGAGTCACAATGGTT
GGCAGGTACGGTTCATAATATGCTTAACATACAAAGGCACGATCCAGTGT
ACTTTTGGCAAGTATGCATAGTACTGGACGAATGGAATCTTACGATCATT
CTTTTCTCCTTCAAAAGTCAATTCATAGTTGCTTCTCTAGAGAAAGACAT
ACTGGTTGCGATGTTTTATTCTTTCACCATCTGGTCTTCGAGTCTTACAT
TTCCCCTTTACTGTCTATCGACCTTTCCCCCCTTACACATGCAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no069_m03.b1 MSMg01no069_m03.b1 CHROMAT_FILE:
MSMg01no069_m03.b1 PHD_FILE: MSMg01no069_m03.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:16:36 2005
         (315 letters)



>mm_chr9_41731922_41732636
          Length = 715

 Score =  576 bits (298), Expect = e-169
 Identities = 307/310 (99%)
 Strand = Plus / Minus

                                                                       
Query: 6   gaattcttattgactgacgaattctaagccattcagacgtctcctcatacctccttttgg 65
           |||||||||||||| || ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 515 gaattcttattgacagaggaattctaagccattcagacgtctcctcatacctccttttgg 456

                                                                       
Query: 66  accctctggcagccttgctgctgttaactgacagctggatgctggttcctggcccactag 125
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 455 accctctggcagctttgctgctgttaactgacagctggatgctggttcctggcccactag 396

                                                                       
Query: 126 gctccactctgttggaacctcaagatctgtcttcaggggttcaacgcaagggtctgcatg 185
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 395 gctccactctgttggaacctcaagatctgtcttcaggggttcaacgcaagggtctgcatg 336

                                                                       
Query: 186 tgcatctgctgcagtgagacacatctgtaactattttttcccctggagatccctctttgt 245
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 335 tgcatctgctgcagtgagacacatctgtaactattttttcccctggagatccctctttgt 276

                                                                       
Query: 246 ggatgtatgctacaacattactcttctctctctgtatgcctacagctgccctacactaac 305
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 275 ggatgtatgctacaacattactcttctctctctgtatgcctacagctgccctacactaac 216

                     
Query: 306 agttcccacc 315
           ||||||||||
Sbjct: 215 agttcccacc 206


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: 2
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: 315
Length of database: 715
Length adjustment: 9
Effective length of query: 306
Effective length of database: 706
Effective search space:   216036
Effective search space used:   216036
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= MSMg01no069_m03.g1 MSMg01no069_m03.g1 CHROMAT_FILE:
MSMg01no069_m03.g1 PHD_FILE: MSMg01no069_m03.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:16:36 2005
         (248 letters)



>mm_chr9_41546196_41546843
          Length = 648

 Score =  468 bits (242), Expect = e-136
 Identities = 245/246 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   cactccccaccaaatcaaaggacaggagtcaaggtttaattcttctatcccctctctaag 60
           |||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 201 cactccccaccaaatcaaaggacaggagtcaaggtttaattcttctatgccctctctaag 260

                                                                       
Query: 61  cataagttgtcctcatatggcgatgtcttctggaatataattctattctttttgaacgtg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 cataagttgtcctcatatggcgatgtcttctggaatataattctattctttttgaacgtg 320

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

                                                                       
Query: 181 acacagacgatcaataggcctacatggtctgtcacatgctgagccttagcaagcaacatg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 acacagacgatcaataggcctacatggtctgtcacatgctgagccttagcaagcaacatg 440

                 
Query: 241 aaccta 246
           ||||||
Sbjct: 441 aaccta 446


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: 12
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: 248
Length of database: 648
Length adjustment: 9
Effective length of query: 239
Effective length of database: 639
Effective search space:   152721
Effective search space used:   152721
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)