BAC Information

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BAC

Clone NameMSMg01-412I10
Chromosome5 (Build37)
Map Location 71,425,878 - 71,570,273
singlet/doubletdoublet
Overlap geneGabra2, LOC635092
Upstream geneGabrg1
Downstream gene4930503B16Rik, Gabra4, Gabrb1, LOC666545, Commd8
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-412I10.T7 (MSMg01no412_i10.b1)MSMg01-412I10.TJ (MSMg01no412_i10.g1)
ACCAG509278AG509279
length749767
length of high quality
(start - end)
272 (48 - 319)483 (77 - 559)
definitionCHROMAT_FILE: MSMg01no412_i10.b1 PHD_FILE: MSMg01no412_i10.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:29:55 2005CHROMAT_FILE: MSMg01no412_i10.g1 PHD_FILE: MSMg01no412_i10.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:29:55 2005
singlet/doubletdoubletdoublet
BLAST hituniqueplural
Map location.(71,570,006 - 71,570,273)(71,425,878 - 71,426,239)
sequence
GGTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGC
GGAATTCTGGTCATTTTCGTATCTCACTCAATGACTTAATTGATGTCTTG
AACACAGTAAGTATTGAAGTGAACATTCTGTTAGCAAATCCAATGTAGTT
TTCCACATCGATTTCCCAGGGGAAGGAACCAATCAGTTGTCTGGGTCTCT
CATGCACAGCTTCCAAAGTTTCAGACCGACTTCACTGAGGTAACATATCA
TAAAGCAAAAAGCAAATGCATGTCACTTTCACGATCTTGGCTGCTATTAA
TACATCCCAGCAAACAGTTGTTTTTATGCCAGAACATAGTCAACTCTCCT
GCTGGAGAGGTAATGGATAGCAATAGGTAGATTTAGGGTTAATGAGCAGA
ACTCCAGGAGTCTCCTTGTGTCTTTGCCTGTAATTATTTCTATTTGATAT
CTTATATAATCTTTAGGCTATTGTCATTTTATCATGAGCAACCTTGTGCC
ATAGCAGAGTCAACATGTTGACTCTGACTAATCTGATCTCACACATATTT
TTTCTTAAGTCTAGATTCCTTATTAAGGTAAAGAATATACTACCAGTGGA
TTTTATATCCATTATCTTGACTTTAATTCTAGCTAAGCAAGGCTAGATGA
TGTTTATAATCCCTGCCTTTAATATCTATTGGAATATTATGTCTCCCTCA
AACAACCCCTGAATTGTATTTCTTGTTTGTTATTAACCTGACCCTTGCC
NCCGATGAAGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXTATGACTATAAAAATATTGACTTA
ATATAAATTACCACTATTTCTCAATAGGTTAAGAAACATATTTAATATTT
TTTAAAAGTAAACTTACCATATCTGTATCTGAGACAGGGCCAAAACTGGT
CACGTAAATGTTAGTGAAGACTTCAGTAATACTGTCTAAGAGGAAGAAAA
GAAAGTGGACATAGATTGTATATAGTGAAATATGTACAGAAAAATAGTTG
AGTCTATGGTATAATGCATATGTAAGTGATAAGGCAGTATCGAGATACAC
TTTCCAAACAATCTACAACTAACAGAATTAATGCCTAGAAGTATGTGACA
TTCATCTTTAGAAAAATGCTTAATCAGAATTCCTTCTTAAATATTGCATT
GCTAATTATGAATAGCTTCTTAAAAACTGTCTTAAATAAATCACTCAAAC
AAAGTTTTAACATTAACACTGACAATAGTTAGGGGTTATTGCTTGATACT
ATGAATCTGATGGCTAAACTAATATTACAGATGTCATTTTGGCATGGTTG
CCATTACTAGTTTTGCTCCCTCCCTGACTTATTCCATTCCCCCCTTTAAT
TTTTCCTTCTCCCCCTTCCCCCTCTCCCCTTATCTTATACTAATTATTAT
CTCCCTGCAGTCATCCCTTCTACTTATCAACTCCTACCCCTCTTTTCACT
TATAACCCCCTTCTACG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no412_i10.b1 MSMg01no412_i10.b1 CHROMAT_FILE:
MSMg01no412_i10.b1 PHD_FILE: MSMg01no412_i10.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:29:55 2005
         (272 letters)



>mm_chr5_71569802_71570473
          Length = 672

 Score =  511 bits (264), Expect = e-149
 Identities = 267/268 (99%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattctggtcattttcgtatctcactcaatgacttaattgatgtcttgaacacagtaag 64
           |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 472 gaattctggtcattttggtatctcactcaatgacttaattgatgtcttgaacacagtaag 413

                                                                       
Query: 65  tattgaagtgaacattctgttagcaaatccaatgtagttttccacatcgatttcccaggg 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 412 tattgaagtgaacattctgttagcaaatccaatgtagttttccacatcgatttcccaggg 353

                                                                       
Query: 125 gaaggaaccaatcagttgtctgggtctctcatgcacagcttccaaagtttcagaccgact 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 352 gaaggaaccaatcagttgtctgggtctctcatgcacagcttccaaagtttcagaccgact 293

                                                                       
Query: 185 tcactgaggtaacatatcataaagcaaaaagcaaatgcatgtcactttcacgatcttggc 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 292 tcactgaggtaacatatcataaagcaaaaagcaaatgcatgtcactttcacgatcttggc 233

                                       
Query: 245 tgctattaatacatcccagcaaacagtt 272
           ||||||||||||||||||||||||||||
Sbjct: 232 tgctattaatacatcccagcaaacagtt 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: 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: 272
Length of database: 672
Length adjustment: 9
Effective length of query: 263
Effective length of database: 663
Effective search space:   174369
Effective search space used:   174369
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= MSMg01no412_i10.g1 MSMg01no412_i10.g1 CHROMAT_FILE:
MSMg01no412_i10.g1 PHD_FILE: MSMg01no412_i10.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:29:55 2005
         (483 letters)



>mm_chr5_71425678_71426560
          Length = 883

 Score =  646 bits (334), Expect = 0.0
 Identities = 355/362 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   tatgactataaaaatattgacttaatataaattaccactatttctcaataggttaagaaa 60
           ||||||| |||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 201 tatgactttaaaaatattgacttaatataaattacctctatttctcaataggttaagaaa 260

                                                                       
Query: 61  catatttaatattttttaaaagtaaacttaccatatctgtatctgagacagggccaaaac 120
           |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 catatttaatatcttttaaaagtaaacttaccatatctgtatctgagacagggccaaaac 320

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

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

                                                                       
Query: 241 catatgtaagtgataaggcagtatcgagatacactttccaaacaatctacaactaacaga 300
           || | |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 cagaagtaagtgataaggcagtatcgagatacactttccaaacaatctacaactaacaga 500

                                                                       
Query: 301 attaatgcctagaagtatgtgacattcatctttagaaaaatgcttaatcagaattccttc 360
           ||||||||| |||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 attaatgccaagaagtatttgacattcatctttagaaaaatgcttaatcagaattccttc 560

             
Query: 361 tt 362
           ||
Sbjct: 561 tt 562


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: 16
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: 483
Length of database: 883
Length adjustment: 10
Effective length of query: 473
Effective length of database: 873
Effective search space:   412929
Effective search space used:   412929
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)