BAC Information

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BAC

Clone NameMSMg01-236A07
Chromosome9 (Build37)
Map Location 56,552,974 - 56,698,804
singlet/doubletdoublet
Overlap geneOdf3l1
Upstream geneZfp291, LOC664980, 4930563M21Rik, LOC664995, LOC665005, Rcn2, Pstpip1, Tspan3, C230081A13Rik, Hmg20a, LOC100039535, LOC100039549, LOC640537, Lingo1
Downstream geneCspg4, Sh3px3, Imp3, Snupn, Ptpn9, 2700012I20Rik, Sin3a, Man2c1, Neil1, Commd4, 1700041C23Rik, Trcg1, 1700017B05Rik, EG330948, Ppcdc, Scamp5, D9Wsu149, LOC620603, Rpp25, Cox5a, 2310046O06Rik, Mpi1, Scamp2, Ulk3, Cplx3, Lman1l, Csk, Cyp1a2, Cyp1a1, Edc3, Clk3, Arid3b, LOC665235, LOC677423
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-236A07.T7 (MSMg01no236_a07.b1)MSMg01-236A07.TJ (MSMg01no236_a07.g1)
ACCAG401403AG401404
length726726
length of high quality
(start - end)
236 (123 - 358)335 (374 - 708)
definitionCHROMAT_FILE: MSMg01no236_a07.b1 PHD_FILE: MSMg01no236_a07.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:53:28 2005CHROMAT_FILE: MSMg01no236_a07.g1 PHD_FILE: MSMg01no236_a07.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:53:29 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(56,552,974 - 56,553,205)(56,698,470 - 56,698,804)
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCCACAAAACATCACAAGTAGTCCCAAGAGACAGTAAACTCCCTATA
TACAGAGGTGCCTAGGATGGCCCCATGTGATAGGCAGACAGTGTGGGTGG
CAAACCACCTACAGTCCCCCATGCTAGGATAGAGCCCTATGTGAATAGAG
CTCCAGGGTTAGATATGCATTAACTCCAACCCAGTCTCTGCCCCGGCAGC
CTGGCTGGGCTGGCATGAGTCTGGCCATGCTCAGCTGCAGACTCACTTCT
CCAGGAAGAATAACACAGAAAAGATGACTGTCATTAATGGGTGCCTAGTG
GACACTTTGTTCATTCCGCCCCGCGCTGGGACTTGTAACAGGTCCCTGCT
TCCTTCTGAATCAACACAACTATCCCACTGTGAATTTACTTGGTACTGCC
TGTCCCATAGCTTCATCCACCTCCCTTTCACCCAACTGTCCAGCGATAGC
TGCTGGCCTCTTCCTTGCCAGCAGGCAGCCTACACTTCAGGAATTTGAGG
TTGGCGGGCCTAGCAAGATTCTGGTCTCTTACAATCACTTGTGTCCACCA
ATATTGGCCGTGTGTTTGCTCCATGCTAAGTTATTTACCAGCAACTGACT
CATCTAATGGCTGTGAGGTTGTAAAGGAGACAATAGTCTTTCCTTCCTTT
CTCTTTTTCATTTGTTTGCTGTTGTG
CGATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXTCACTAAGTTGTCACTGACTGATT
ATTGGGAAGTGTCTTATTTTGTCGAATGATGGAATGTTTGGGCTCTCTTG
AGTCTCACATCGCCAGTTACTGTGGCTGGATAGAGTGATTATTTCTTAGC
CTCAGTATTGTTATCTGTAAGATGGAAAAAGATGAAAGTATCTGTCTTAA
TAAGGTTGTCTAGAGGCTCAACTGAAATAACCATATCAAGTGCTTAGCAT
GAGTCTTGATACCAAGTTCCTCGTTGACTATGACTGTTGCCTCTCTCGTT
ACAGTGAGTTGTATCCACACGAAATTGCCTTTTATCTCTGCATACTACCT
TGTAGGGAACCAGCTGATACCCAGCTCTGTGGCAGTATGCCTTTAGCCAG
AGCAAAGCCCCCTGTGTTCTCACCGTGGGCCGAGGGCTGAGGCTAAAGGT
TGTCTTGTTTGTCCTCCCAGGTCCAGGGCCTGCCAAGTACCTCCGGTCAT
CCTGTACTGGCTATATAGCCCATGACATCTCCATGTTCCAGGAGCCAGCT
TACAGTCTGCATACACGGCACACTAAGAAACGTGAGCAGTTCCCACTTTC
TGTCCCTTAAGGGTCGGGTCTAATGTCCAAGGTTGCTGCCACAGGCCACT
GGGGGCTGTGGCTGGTGAAGATGGAG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no236_a07.b1 MSMg01no236_a07.b1 CHROMAT_FILE:
MSMg01no236_a07.b1 PHD_FILE: MSMg01no236_a07.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:53:28 2005
         (236 letters)



>mm_chr9_56552770_56553405
          Length = 636

 Score =  449 bits (232), Expect = e-131
 Identities = 232/232 (100%)
 Strand = Plus / Plus

                                                                       
Query: 5   gtgataggcagacagtgtgggtggcaaaccacctacagtcccccatgctaggatagagcc 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gtgataggcagacagtgtgggtggcaaaccacctacagtcccccatgctaggatagagcc 264

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

                                                                       
Query: 125 cagcctggctgggctggcatgagtctggccatgctcagctgcagactcacttctccagga 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 cagcctggctgggctggcatgagtctggccatgctcagctgcagactcacttctccagga 384

                                                               
Query: 185 agaataacacagaaaagatgactgtcattaatgggtgcctagtggacacttt 236
           ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 agaataacacagaaaagatgactgtcattaatgggtgcctagtggacacttt 436


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: 11
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: 236
Length of database: 636
Length adjustment: 9
Effective length of query: 227
Effective length of database: 627
Effective search space:   142329
Effective search space used:   142329
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)
Query= MSMg01no236_a07.g1 MSMg01no236_a07.g1 CHROMAT_FILE:
MSMg01no236_a07.g1 PHD_FILE: MSMg01no236_a07.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:53:29 2005
         (335 letters)



>mm_chr9_56698270_56699004
          Length = 735

 Score =  632 bits (327), Expect = 0.0
 Identities = 333/335 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   attgccttttatctctgcatactaccttgtagggaaccagctgatacccagctctgtggc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 535 attgccttttatctctgcatactaccttgtagggaaccagctgatacccagctctgtggc 476

                                                                       
Query: 61  agtatgcctttagccagagcaaagccccctgtgttctcaccgtgggccgagggctgaggc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 475 agtatgcctttagccagagcaaagccccctgtgttctcaccgtgggccgagggctgaggc 416

                                                                       
Query: 121 taaaggttgtcttgtttgtcctcccaggtccagggcctgccaagtacctccggtcatcct 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 415 taaaggttgtcttgtttgtcctcccaggtccagggcctgccaagtacctccggtcatcct 356

                                                                       
Query: 181 gtactggctatatagcccatgacatctccatgttccaggagccagcttacagtctgcata 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 355 gtactggctatatagcccatgacatctccatgttccaggagccagcttacagtctgcata 296

                                                                       
Query: 241 cacggcacactaagaaacgtgagcagttcccactttctgtcccttaagggtcgggtctaa 300
           ||||||||||||||||||||||||||| |||||| |||||||||||||||||||||||||
Sbjct: 295 cacggcacactaagaaacgtgagcagtccccactgtctgtcccttaagggtcgggtctaa 236

                                              
Query: 301 tgtccaaggttgctgccacaggccactgggggctg 335
           |||||||||||||||||||||||||||||||||||
Sbjct: 235 tgtccaaggttgctgccacaggccactgggggctg 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: 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: 335
Length of database: 735
Length adjustment: 9
Effective length of query: 326
Effective length of database: 726
Effective search space:   236676
Effective search space used:   236676
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)