BAC Information

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BAC

Clone NameMSMg01-481M08
Chromosome9 (Build37)
Map Location 49,472,008 - 49,637,803
singlet/doubletdoublet
Overlap geneNcam1
Upstream geneZbtb16, Htr3a, Htr3b, Usp28, LOC100042785, Zw10, EG629400, Tmprss5, EG235327, Drd2, Ankk1, Ttc12
Downstream geneEG667975, LOC100042806, LOC100043346, LOC672372, 1600029D21Rik, Pts, Bcdo2, Tex12, Il18, Sdhd, Timm8b, AU019823, Pih1d2, Dlat, Dixdc1, 2310030G06Rik, Hspb2, Cryab, 1110032A03Rik, D630004A14Rik, Alg9
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-481M08.T7 (MSMg01no481_m08.b1)MSMg01-481M08.TJ (MSMg01no481_m08.g1)
ACCAG562098AG562099
length763747
length of high quality
(start - end)
402 (327 - 728)560 (71 - 630)
definitionCHROMAT_FILE: MSMg01no481_m08.b1 PHD_FILE: MSMg01no481_m08.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:02:31 2005CHROMAT_FILE: MSMg01no481_m08.g1 PHD_FILE: MSMg01no481_m08.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:02:31 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(49,472,008 - 49,472,409)(49,637,244 - 49,637,803)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXTTCGTAAACTCCGCGGAATCAAC
GCATTTTACTGATAATTTAANAAGAACTGCAGAGCCCTTCCTACACCTCT
CAGCATGCCAATGGGACATCCTGCAGTGGACACCAAATGCAGGGAGATTG
AAAAGGACAGATGTGGCTGATTTGGTCACATTTCCTGCTCACCATCTAGA
TCCTGACCAAGTCCTCTCAAAGGAAAAACAATCCATGAATGAGACTTCTT
CATGCATCATGATTAAAAGACAAACAAAAAAACAAAAACAAAGAAAATAC
CACAAACCCCAGAGCTGNCTCACTTCTAAAGGATCGGGACTTAAGTTTAA
TTTAGCTAATGAGGCTTTGGAGAGTCAGTTATCCTCCCAAGGCTGCTGAC
ACCAGCAGGACAGCAGAAGAAACTCCATATTTCAGCAGGAGTCCCACCCT
ACCAGGCGCCACACAGAATGGGACAAACCTGTAGATCCAACTTAGAACAT
TCCTGGGAGCCCGGTCATGGGTATAACCGCCAAGCAGACATGAATCAGAA
TAGCCCAAGAGGCACCCACAGGATCTTTCAGGTCTATTTTAGGTAATGAT
CGGAGCCAACAGAAAGTTATATAGAATTCTAGAGAGAAACATAGTCAGCA
AAGCCAGATGCACTATGATGCGTTCCTAGGGTGTAAGACAACCAACCACA
TCTCCTTAAGTTGTCCACTGTACCCTGCCATGTTCATAGCACCAGGCCAA
CATCAGCAACTTA
TGATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXTTCAGGAATTCCTCCTCTCCAGCTACAGTTTACTTGAAGAT
TTACCGGGCAGCTCTTCCACCAGCCAATAAGCTCTGGCCTAGATTCAGGT
CCTTTTTTTACTCAGACTTTGCAAGCCCAGAACCCCTTACTAGATCTGGG
AACAAAATAAGGGCTCGTTTGTTCCTTTGAGGCCCTGTTACCTACACAGA
ACATGTCTCTACTTAGTTCCAAACAGCAAAGAAAACCCAAGTATGGCCTG
AGAGGTTTTCTGTTTGGGGTCTTTCCTTCATTCCTCTGGGAAGGCTAACT
TCCTCCAACTCCTAAGGCACCATTTAAGCCACCATCAAAGACATGGAATC
CCTGGGAGTGATCTCCCATCTGAACCTTCTCATGTGCATTTAAAGCGGTG
CCTGGGTCTGGGCCTTTGATTCCTGAAAGCCTAGCACCTGGACCAAGAAA
ACGCGTTCCAAATGTACTGGTGGGCAGCCTCAGATTCGGCTCTCTGTGAG
AAAAGGAACGTTAAGCCTCCACTTTTGTCCACTTTCAGCATGTCAGATGC
TAAAGGGAACAGTGGGTTTAATGTGTGCCAGGTTGTGTACCAAGCTCCTA
CCACCTAACGTACCTCCTGCAGGCAATTCCACAGAAACTCAACAATGACA
GCTTCAAGGTCCAAGCTTCCACAGCCCTGGAAGTAGATAGGCCTGTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no481_m08.b1 MSMg01no481_m08.b1 CHROMAT_FILE:
MSMg01no481_m08.b1 PHD_FILE: MSMg01no481_m08.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:02:31 2005
         (402 letters)



>mm_chr9_49471808_49472609
          Length = 802

 Score =  739 bits (382), Expect = 0.0
 Identities = 397/402 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   taaaggatcgggacttaagtttaatttagctaatgaggctttggagagtcagttatcctc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 taaaggatcgggacttaagtttaatttagctaatgaggctttggagagtcagttatcctc 260

                                                                       
Query: 61  ccaaggctgctgacaccagcaggacagcagaagaaactccatatttcagcaggagtccca 120
           |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 ccaaggctgctgacgccagcaggacagcagaagaaactccatatttcagcaggagtccca 320

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

                                                                       
Query: 181 gagcccggtcatgggtataaccgccaagcagacatgaatcagaatagcccaagaggcacc 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 381 gagcccggtcatgggtataaccgccaagcagacatgaatcagaatagcccaagaggcgcc 440

                                                                       
Query: 241 cacaggatctttcaggtctattttaggtaatgatcggagccaacagaaagttatatagaa 300
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 cacaggatcttccaggtctattttaggtaatgatcggagccaacagaaagttatatagaa 500

                                                                       
Query: 301 ttctagagagaaacatagtcagcaaagccagatgcactatgatgcgttcctagggtgtaa 360
           ||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||
Sbjct: 501 ttctagagagaaacatagtcagcaaagccagatgcacaatgatgcgttcctagggtgtaa 560

                                                     
Query: 361 gacaaccaaccacatctccttaagttgtccactgtaccctgc 402
           ||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 561 gacaaccaaccacgtctccttaagttgtccactgtaccctgc 602


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: 402
Length of database: 802
Length adjustment: 9
Effective length of query: 393
Effective length of database: 793
Effective search space:   311649
Effective search space used:   311649
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= MSMg01no481_m08.g1 MSMg01no481_m08.g1 CHROMAT_FILE:
MSMg01no481_m08.g1 PHD_FILE: MSMg01no481_m08.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:02:31 2005
         (560 letters)



>mm_chr9_49637044_49638003
          Length = 960

 Score = 1013 bits (524), Expect = 0.0
 Identities = 551/560 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   ctcctctccagctacagtttacttgaagatttaccgggcagctcttccaccagccaataa 60
           |||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||
Sbjct: 760 ctcctctccagctacagtttgcttgaagatttaccgggcagctcttccaccagccaataa 701

                                                                       
Query: 61  gctctggcctagattcaggtcctttttttactcagactttgcaagcccagaaccccttac 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||
Sbjct: 700 gctctggcctagattcaggtcctttttttactcagactttgcaagcccagagccccttac 641

                                                                       
Query: 121 tagatctgggaacaaaataagggctcgtttgttcctttgaggccctgttacctacacaga 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 640 tagatctgggaacaaaataagggctcgtttgttcctttgaggccctgttacctacacaga 581

                                                                       
Query: 181 acatgtctctacttagttccaaacagcaaagaaaacccaagtatggcctgagaggttttc 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 580 acatgtctctacttagttccaaacagcaaagaaaacccaagtatggcctgagaggttttc 521

                                                                       
Query: 241 tgtttggggtctttccttcattcctctgggaaggctaacttcctccaactcctaaggcac 300
           ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 520 tgtttggggcctttccttcattcctctgggaaggctaacttcctccaactcctaaggcac 461

                                                                       
Query: 301 catttaagccaccatcaaagacatggaatccctgggagtgatctcccatctgaaccttct 360
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 460 tatttaagccaccatcaaagacatggaatccctgggagtgatctcccatctgaaccttct 401

                                                                       
Query: 361 catgtgcatttaaagcggtgcctgggtctgggcctttgattcctgaaagcctagcacctg 420
           ||||||| ||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 400 catgtgcgtttcaagcggtgcctgggtctgggcctttgattcctgaaagcctagcacctg 341

                                                                       
Query: 421 gaccaagaaaacgcgttccaaatgtactggtgggcagcctcagattcggctctctgtgag 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 340 gaccaagaaaacgcgttccaaatgtactggtgggcagcctcagattcggctctctatgag 281

                                                                       
Query: 481 aaaaggaacgttaagcctccacttttgtccactttcagcatgtcagatgctaaagggaac 540
           |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 280 aaaaggaacgttaagcatccacttttgtccactttcagcatgtcagatgctaaagggaac 221

                               
Query: 541 agtgggtttaatgtgtgcca 560
            |||||||||||||||||||
Sbjct: 220 ggtgggtttaatgtgtgcca 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: 24
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: 560
Length of database: 960
Length adjustment: 10
Effective length of query: 550
Effective length of database: 950
Effective search space:   522500
Effective search space used:   522500
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)