BAC Information

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BAC

Clone NameMSMg01-047H04
Chromosome9 (Build37)
Map Location 119,353,481 - 119,370,365
singlet/doubletdoublet
Overlap geneEndogl1
Upstream geneEomes, Golga4, Itga9, LOC100039768, Ctdspl, Vill, Plcd1, Dlec1, Acaa1b, EG546165, Slc22a14, Slc22a13, 9330176C04Rik, Oxsr1, Myd88, Acaa1a, Xylb, Acvr2b
Downstream geneScn5a, Scn10a, Scn11a, LOC100039837, Wdr48, Gorasp1, Ttc21a, Axud1, Cmya1, Cx3cr1, Ccr8, Slc25a38, Rpsa, Snora62, EG546166, Mobp, LOC100039898, Myrip, LOC666044
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-047H04.T7 (MSMg01no047_h04.b1)MSMg01-047H04.TJ (MSMg01no047_h04.g1)
ACCAG277520AG277521
length683688
length of high quality
(start - end)		606 (46 - 651)612 (77 - 688)
definitionCHROMAT_FILE: MSMg01no047_h04.b1 PHD_FILE: MSMg01no047_h04.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 12:07:48 2005CHROMAT_FILE: MSMg01no047_h04.g1 PHD_FILE: MSMg01no047_h04.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 12:07:48 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(119,353,481 - 119,354,082)(119,369,908 - 119,370,365)
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCAAGTGTCAGTTTTGGTGGCAAGCACCCTTACTGATGAACCATCTT
GCTTGTCTAGGCACAAATTAAAAGAGATAACATGGACTGACACACTGGAC
TAGTTTGGTAAGGATTTAACTTCTGAGCTCTGGCCCATCCAGAGTCTCTG
GCTACCATTGAGTACTGTTTTCCCAGGAAACTCGATAGGTGGTACAAACA
CTCTGATGTGTATTTTGACTTTGAAGCAAGTGCCCCAAACAGTCCAATGG
GGTACAGGTTTTGGAATCACATCGAGTTGGATCCCAGGTTAGGAGATCTT
TGATGGATCATGAACAAGCATTTACTCACTATTAAATGGGACTAAAGACA
ATTTCTTCAGAGGACAGCACACACACACCATTAAATTGACAAGCTAGGAC
ACTTAACCCATCCATTAACTGGCCAGGACCAGGGATGGAGGTAGGCGTGC
CTCCCCTGCTGGACTCTAGGGGACGCGCGAGACCCTCAGCAGCGAAGGCC
TCTGGGAGGCGGTTCGGGATGGCGCATGCGCGCCTGGTTCCGGAGCCGGC
GATTGGACCATTCCGGCCTCGGAGCCCCCGCGTGCGCATGCGTGGCAGAG
ACAAAGTGCTGGCGCCCGCGAGTCATGGCTGCN

CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXCATGGTCTGTCTGTCACACATTAC
CACAGCCAGCTACAGGACTTCAGGCAAGACCCTGCCACAGGATCTACAAC
AATGCCTTTGAACATACGGAAAGTGGTTGGTTGGTCAGGGCAGAGCAGGG
CTTATGAAACCACACTGCTCACAGGTTCGAGATCTCGCTCCCAGGGGTGA
GCTGTGCATGAGGACGTGAGACCATCGAAGCAAAGGGATGAGAAGGTAAG
CTGGTGTTCACACTCGGGTCACAGAACCCCAGCAGATGCTCTGGGTCCCA
GGCCTAGCACTGACCCGAAGCACGGTAAAAAGGTGGTGCAGCTAGGAATC
CTGGCATCCAGGTGAAGGCAGGAGGGCCATAAGCTCTAGGCCATCCTTGG
CTATACACTTAAGAGCTCGAGGCCAGCCCGGACTACGAATCTCATTACAA
AGGAAAGAGGAGGGCACAAAACCCTGAAGCACACTATCTGCAGGAGAGCC
GACTGCCACGGCATGTGGCCAGATACTGAAACATGATAAATAATAACAGT
AAGGGCTCAGGAACCAAAACTAAGGACATAACTACGATGGAGCCACACTC
AAAAGGCGGTAGGAAACGAGCTGCAAACATCCCACAGN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no047_h04.b1 MSMg01no047_h04.b1 CHROMAT_FILE:
MSMg01no047_h04.b1 PHD_FILE: MSMg01no047_h04.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 12:07:48 2005
         (606 letters)



>mm_chr9_119353277_119354282
          Length = 1006

 Score = 1156 bits (598), Expect = 0.0
 Identities = 601/602 (99%)
 Strand = Plus / Plus

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

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

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

                                                                       
Query: 185 actcgataggtggtacaaacactctgatgtgtattttgactttgaagcaagtgccccaaa 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 actcgataggtggtacaaacactctgatgtgtattttgactttgaagcaagtgccccaaa 444

                                                                       
Query: 245 cagtccaatggggtacaggttttggaatcacatcgagttggatcccaggttaggagatct 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 445 cagtccaatggggtacaggttttggaatcacatcgagttggatcccaggttaggagatct 504

                                                                       
Query: 305 ttgatggatcatgaacaagcatttactcactattaaatgggactaaagacaatttcttca 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 ttgatggatcatgaacaagcatttactcactattaaatgggactaaagacaatttcttca 564

                                                                       
Query: 365 gaggacagcacacacacaccattaaattgacaagctaggacacttaacccatccattaac 424
           |||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 565 gaggacagtacacacacaccattaaattgacaagctaggacacttaacccatccattaac 624

                                                                       
Query: 425 tggccaggaccagggatggaggtaggcgtgcctcccctgctggactctaggggacgcgcg 484
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 625 tggccaggaccagggatggaggtaggcgtgcctcccctgctggactctaggggacgcgcg 684

                                                                       
Query: 485 agaccctcagcagcgaaggcctctgggaggcggttcgggatggcgcatgcgcgcctggtt 544
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 685 agaccctcagcagcgaaggcctctgggaggcggttcgggatggcgcatgcgcgcctggtt 744

                                                                       
Query: 545 ccggagccggcgattggaccattccggcctcggagcccccgcgtgcgcatgcgtggcaga 604
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 745 ccggagccggcgattggaccattccggcctcggagcccccgcgtgcgcatgcgtggcaga 804

             
Query: 605 ga 606
           ||
Sbjct: 805 ga 806


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: 30
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: 606
Length of database: 1006
Length adjustment: 10
Effective length of query: 596
Effective length of database: 996
Effective search space:   593616
Effective search space used:   593616
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= MSMg01no047_h04.g1 MSMg01no047_h04.g1 CHROMAT_FILE:
MSMg01no047_h04.g1 PHD_FILE: MSMg01no047_h04.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 12:07:48 2005
         (612 letters)



>mm_chr9_119369908_119370919
          Length = 1012

 Score =  870 bits (450), Expect = 0.0
 Identities = 456/458 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   catggtctgtctgtcacacattaccacagccagctacaggacttcaggcaagaccctgcc 60
           |||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 458 catggtctgtctgtcacacattaccacagccagctacaggacttcagggaagaccctgcc 399

                                                                       
Query: 61  acaggatctacaacaatgcctttgaacatacggaaagtggttggttggtcagggcagagc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 398 acaggatctacaacaatgcctttgaacatacggaaagtggttggttggtcagggcagagc 339

                                                                       
Query: 121 agggcttatgaaaccacactgctcacaggttcgagatctcgctcccaggggtgagctgtg 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 338 agggcttatgaaaccacactgctcacaggttcgagatctcgctcccaggggtgagctgtg 279

                                                                       
Query: 181 catgaggacgtgagaccatcgaagcaaagggatgagaaggtaagctggtgttcacactcg 240
           || |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 278 cacgaggacgtgagaccatcgaagcaaagggatgagaaggtaagctggtgttcacactcg 219

                                                                       
Query: 241 ggtcacagaaccccagcagatgctctgggtcccaggcctagcactgacccgaagcacggt 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 218 ggtcacagaaccccagcagatgctctgggtcccaggcctagcactgacccgaagcacggt 159

                                                                       
Query: 301 aaaaaggtggtgcagctaggaatcctggcatccaggtgaaggcaggagggccataagctc 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 158 aaaaaggtggtgcagctaggaatcctggcatccaggtgaaggcaggagggccataagctc 99

                                                                       
Query: 361 taggccatccttggctatacacttaagagctcgaggccagcccggactacgaatctcatt 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98  taggccatccttggctatacacttaagagctcgaggccagcccggactacgaatctcatt 39

                                                 
Query: 421 acaaaggaaagaggagggcacaaaaccctgaagcacac 458
           ||||||||||||||||||||||||||||||||||||||
Sbjct: 38  acaaaggaaagaggagggcacaaaaccctgaagcacac 1


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: 21
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: 612
Length of database: 1012
Length adjustment: 10
Effective length of query: 602
Effective length of database: 1002
Effective search space:   603204
Effective search space used:   603204
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)


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