BAC Information

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BAC

Clone NameMSMg01-098F11
Chromosome9 (Build37)
Map Location 41,979,310 - 42,151,699
singlet/doubletdoublet
Overlap geneSc5d, Tecta
Upstream geneLOC100042464, EG667566, 6720432D03Rik, Sorl1
Downstream geneTbcel, Grik4, Arhgef12, LOC545339, Tmem136, Pou2f3, LOC628726, Oaf, D630033O11Rik, Trim29
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-098F11.T7 (MSMg01no098_f11.b1)MSMg01-098F11.TJ (MSMg01no098_f11.g1)
ACCAG314548AG314549
length788810
length of high quality
(start - end)
274 (101 - 374)121 (126 - 246)
definitionCHROMAT_FILE: MSMg01no098_f11.b1 PHD_FILE: MSMg01no098_f11.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:55:25 2005CHROMAT_FILE: MSMg01no098_f11.g1 PHD_FILE: MSMg01no098_f11.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:55:25 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(41,979,310 - 41,979,579)(42,151,579 - 42,151,699)
sequence
NNNNNNNNNNNNNNNNNNNNNNNCCCCCCCCCCCNNNCCCNCCATATAAA
ANNATATCTATAAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
CGCGGAATTCACTTATTTCCCGCAAGGTGAGCTTTGGGATTGACGTAAAG
AAACCATTTCCCACATACATTACCACCCTGGCCTTGGATGAGGGCACCTT
CCCACCTTTTCGATCTGTAAGCCTCTTTTTCTTGGTCTTACTTCACTGAT
TAGTAGTAAATGAGACGTAGCAGCAGCTGCTCTCTCTGTTTCCAGGCTTG
GGAAAAGTCTTCCATCTCTCACGGTGAAATACGGCGCTCGCTAGGCGTGT
TGGAAGCACCCCGAGCCGGCTGTGTTCCTCAGGGGTTTGCAGTTGTGACA
AATACCTGAGAGTCCTTTAAATTGCTTTTTAAGGGAAGGAAAGATTCTTT
TTTTATTTTATGAATTCTAATAACATGTTTTTTTCCTTCTATAGCTTATG
CATTTTGAAGATTCCATTGCGAATATTCACTGTACATGGTACTGTGTTCC
ATAAAGACATTCTCATATAAACGTATGTTGCTGCTCAACGTGTTCCCCCA
TCTCCTCTTTCCCTCTTCAACCTCTTGCCCCTCTCAGCTTCCCTTTGCTC
CCCGAGACAGCTTCAGTTCTACGTAGAGATGCATATCGACTTTGTCTCCT
CCTACGGCTCACTCTATGTCCACGCGCAGCCATTGTTATTACCCCTCGCT
GGTAAACAGAACAATATGGCCCCACTATTGTGTGTCTN
NATTTTNNNNNNNNCCNNCCNNNNNNNCCCCCCCCCCCCNCNCCACCCCA
NANCCGATGCTATGGGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXTTTTATTTCTATGGGTACCGTGGGG
GTAGCATTGTCTGATGTCAGGTCCACCCCATATTTACTTACCCACCTGCC
CCATGGGGTGGAGGGGAGGGGTCTGTGAGTTGCCCCTGAGATTCAAAGAG
GAGGCATTTCCAGAGGAGCCTGACCCACTTGTAGCCCCTATCCAGTGATG
GATATCTGATGAGCTGATGATGAGGCTCTGGCTCTGGTAATTACCCGCTT
ACCGACTTCTCGGAAAGACTTTTTTAGCCTGTCACTCCTGGTTGTCGTTC
TTCTCTACTCTTTTTCACCATGCCCTCTATCCTAGATTGGTACACTGCTA
ATGCTAAGAGGAGCCGGATCTAGGTGGCTCCACTCGGCTTCAATAGGCAA
GCTGTGATTGTTACGTCCATAGTTTCTCCACTTTACACCTTCTTTTACCA
CCTGCCTTGTTCCTCTGACGCGTTACTGTATTTACTATTTTTGTTTACGT
TCCCTCTCCCCTTTTTTTTCCCTTATCTTTATCCTTTTTGGACCACTATC
CTATCGAGTTATTTTTTTTTCTTTCCTCCCTCTTTTCTTTTTTCTTTTAT
TTAATCTTACTCTGTTCTCACCATTTTATAATCTTTCGTATATAATACAT
CTTATTTCCCCCCTTTTTTTTTTTTCTTGGCCTCTTACACTTTCTCCGTC
GCTTCCTTAC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no098_f11.b1 MSMg01no098_f11.b1 CHROMAT_FILE:
MSMg01no098_f11.b1 PHD_FILE: MSMg01no098_f11.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:55:25 2005
         (274 letters)



>mm_chr9_41979106_41979779
          Length = 674

 Score =  491 bits (254), Expect = e-143
 Identities = 266/270 (98%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcacttatttcccgcaaggtgagctttgggattgacgtaaagaaaccatttcccac 64
           ||||||||||| |||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattcacttacttccagcaaggtgagctttgggattgacgtaaagaaaccatttcccac 264

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

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

                                                                       
Query: 185 tctgtttccaggcttgggaaaagtcttccatctctcacggtgaaatacggcgctcgctag 244
           ||||||||||||||||||||||| |||||||||||||||||||||||||| |||||||||
Sbjct: 385 tctgtttccaggcttgggaaaagccttccatctctcacggtgaaatacggtgctcgctag 444

                                         
Query: 245 gcgtgttggaagcaccccgagccggctgtg 274
           ||||||||||||||||||||||||||||||
Sbjct: 445 gcgtgttggaagcaccccgagccggctgtg 474


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: 274
Length of database: 674
Length adjustment: 9
Effective length of query: 265
Effective length of database: 665
Effective search space:   176225
Effective search space used:   176225
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= MSMg01no098_f11.g1 MSMg01no098_f11.g1 CHROMAT_FILE:
MSMg01no098_f11.g1 PHD_FILE: MSMg01no098_f11.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:55:25 2005
         (121 letters)



>mm_chr9_42151379_42151899
          Length = 521

 Score =  226 bits (117), Expect = 3e-64
 Identities = 120/121 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   ttttatttctatgggtaccgtgggggtagcattgtctgatgtcaggtccaccccatattt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 ttttatttctatgggtaccgtgggggtagcattgtctgatgtcaggtccaccccatattt 262

                                                                       
Query: 61  acttacccacctgccccatggggtggaggggaggggtctgtgagttgcccctgagattca 120
           |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 261 acttacccacctgccccatggggtggaggggagggggctgtgagttgcccctgagattca 202

            
Query: 121 a 121
           |
Sbjct: 201 a 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: 5
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: 121
Length of database: 521
Length adjustment: 8
Effective length of query: 113
Effective length of database: 513
Effective search space:    57969
Effective search space used:    57969
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)