BAC Information

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BAC

Clone NameMSMg01-216P05
Chromosome6 (Build37)
Map Location 55,878,063 - 56,026,611
singlet/doubletdoublet
Overlap geneCcdc129, Gsbs, LOC100041357
Upstream geneNod1, A030007L17Rik, Gars, Crhr2, Inmt, C330043M08Rik, Aqp1, Ghrhr, Adcyap1r1, LOC100042219, Neurod6, LOC100041339
Downstream genePde1c, EG666688, Lsm5, 5830411G16Rik, LOC100042288, Kbtbd2, Fkbp9, Nt5c3, LOC100042327, V1rc21, V1rc19, V1rc20, EG434016, V1rc32, V1rc30
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-216P05.T7 (MSMg01no216_p05.b1)MSMg01-216P05.TJ (MSMg01no216_p05.g1)
ACCAG396645AG396646
length729729
length of high quality
(start - end)
312 (46 - 357)287 (77 - 363)
definitionCHROMAT_FILE: MSMg01no216_p05.b1 PHD_FILE: MSMg01no216_p05.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:44:10 2005CHROMAT_FILE: MSMg01no216_p05.g1 PHD_FILE: MSMg01no216_p05.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:44:10 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(56,026,304 - 56,026,611)(55,878,063 - 55,878,343)
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCTAGCAAATGGTAAATGTTCCTTCATGCTGTGAAGTGGGAAATTCA
ATAATACTTTGGCTGAGTTCATGCTGAGTTGTGAAAATAGGATGAATATG
AAGAGGGACTGTGACTCAAAAGACATAAATCAGTGATCCCAGGCCTGAGC
TCGTGATCTGAGACGCTCAGCCCTCCCTTCTCTATCCTCCTGGGTCACTG
CAATGTTTTTATACTTGTTCTAGATGTGTTGGGAGTGGGAATGGTGGCGG
CTATAATACTTGTTGACCCTAATCTATGGGATTAAGTATTCTGAGAGCTT
AAATGTGTTTATTTCTATCCCCCCCCCCCCCCCCTTTATTACTGTGTCAC
AACAGACCCATTTTCTGACACCCTTCACAGAGTGAAGATATCTCCAAGCA
GTTTCAGCCTGGGCATTAAGAAGCCTGGGAAGAGCAGCTTATAAGAATGC
CTCTTCTTGTAAGTGATGCACAAGTTCTCGGGTAGACCTAGAAAGACTGC
CCACCAGGGCAGGGATTTCTGTTCTTTTCAGCTATACCAGCTGCACACAG
CATATGTTCTAAGAAACCAACAGGTAAATATTAATCTTAGACTTCATACA
CTGTGCTGAGCAAGACTTTCTGGGGGTCTAGTGCGAAAACCCCCCGAATA
TTGTCTTATCGAATTTTCCCTCTGGTGAG
CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXTTTAAAAAAAATTGTCTCTACTTC
TCTGAAATAACACAATAGACTTATTTTCATCCACTGGATTGGGATCCATG
ACACAAATGCATGACCTTTGGTTGTAAATTATTTCTTAGGAATCTTCTAA
TAATAACTTTCATTTTCCTTCTGGAGATCAACGTCCTTAATATTGGCACT
CTGGAAGTAGTCCTCCAATGTTTGCATGTTTGCTTGGTGATTGTCATGAA
AACAACAGGCCTCCTCTATCATGTACACCTCCTTTGATGCAGGCTGAACA
CAAATTGAAATTTTTATTCACACCCCCCCTCTATTCCTGTTAGGTTGATT
CTCATAGGTGTTTTTGTTTGCTTGTTTGATAGTCTGTTTGCCACGGTGAC
TGCTGATCAACAGATCGATTTCCATTTCCATGCACTTAATTTCAGTGAAG
CTTTTGTTCTCAATAGGCTTTCCCCCCATAGCATCTTAGCTTTTTTCTCT
TTTCATTAAAATTATCACTTACAGCTCATGCATATGTATGCACATGACTT
GGTACATTTTCATGAAGTTTCTCTTGCGGTATAGTTCCTGTTCTTTCCTA
GGCATTTCTTTTCCTATCCTCTTATTGAGGACTTCCTCTTCCTTGCTGCA
AGTTGTCTTAAAAATCTGACCATCCATAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no216_p05.b1 MSMg01no216_p05.b1 CHROMAT_FILE:
MSMg01no216_p05.b1 PHD_FILE: MSMg01no216_p05.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:44:10 2005
         (312 letters)



>mm_chr6_56026100_56026811
          Length = 712

 Score =  565 bits (292), Expect = e-165
 Identities = 304/308 (98%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattctagcaaatggtaaatgttccttcatgctgtgaagtgggaaattcaataatactt 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 512 gaattctagcaaatggtaaatgttccttcatgctgtgaagtgggaaattcaataatactt 453

                                                                       
Query: 65  tggctgagttcatgctgagttgtgaaaataggatgaatatgaagagggactgtgactcaa 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 452 tggctgagttcatgctgagttgtgaaaataggatgaatatgaagagggactgtgactcaa 393

                                                                       
Query: 125 aagacataaatcagtgatcccaggcctgagctcgtgatctgagacgctcagccctccctt 184
           |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 392 aagacataaatcagtgatcccaggcctgagcttgtgatctgagacgctcagccctccctt 333

                                                                       
Query: 185 ctctatcctcctgggtcactgcaatgtttttatacttgttctagatgtgttgggagtggg 244
           |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct: 332 ctctatcctcctgggtcactgcaatgtttttatacttgttctagatgtgttgggggtggg 273

                                                                       
Query: 245 aatggtggcggctataatacttgttgaccctaatctatgggattaagtattctgagagct 304
           ||||||||||||||||||||||||||||||||| ||||||||||||| ||||||||||||
Sbjct: 272 aatggtggcggctataatacttgttgaccctaaactatgggattaagcattctgagagct 213

                   
Query: 305 taaatgtg 312
           ||||||||
Sbjct: 212 taaatgtg 205


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: 312
Length of database: 712
Length adjustment: 9
Effective length of query: 303
Effective length of database: 703
Effective search space:   213009
Effective search space used:   213009
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= MSMg01no216_p05.g1 MSMg01no216_p05.g1 CHROMAT_FILE:
MSMg01no216_p05.g1 PHD_FILE: MSMg01no216_p05.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:44:10 2005
         (287 letters)



>mm_chr6_55877860_55878546
          Length = 687

 Score =  528 bits (273), Expect = e-154
 Identities = 279/281 (99%)
 Strand = Plus / Plus

                                                                       
Query: 4   aaaaaaaattgtctctacttctctgaaataacacaatagacttattttcatccactggat 63
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 204 aaaaaaaattgtctctactgctctgaaataacacaatagacttattttcatccactggat 263

                                                                       
Query: 64  tgggatccatgacacaaatgcatgacctttggttgtaaattatttcttaggaatcttcta 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264 tgggatccatgacacaaatgcatgacctttggttgtaaattatttcttaggaatcttcta 323

                                                                       
Query: 124 ataataactttcattttccttctggagatcaacgtccttaatattggcactctggaagta 183
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 324 ataataactttcactttccttctggagatcaacgtccttaatattggcactctggaagta 383

                                                                       
Query: 184 gtcctccaatgtttgcatgtttgcttggtgattgtcatgaaaacaacaggcctcctctat 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 384 gtcctccaatgtttgcatgtttgcttggtgattgtcatgaaaacaacaggcctcctctat 443

                                                    
Query: 244 catgtacacctcctttgatgcaggctgaacacaaattgaaa 284
           |||||||||||||||||||||||||||||||||||||||||
Sbjct: 444 catgtacacctcctttgatgcaggctgaacacaaattgaaa 484


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: 13
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: 287
Length of database: 687
Length adjustment: 9
Effective length of query: 278
Effective length of database: 678
Effective search space:   188484
Effective search space used:   188484
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)