BAC Information

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BAC

Clone NameMSMg01-098M19
Chromosome9 (Build37)
Map Location 41,924,568 - 42,058,880
singlet/doubletdoublet
Overlap geneSorl1
Upstream gene2810457I06Rik, LOC628495, LOC100042464, EG667566, 6720432D03Rik
Downstream geneSc5d, Tecta, Tbcel, Grik4, Arhgef12, LOC545339, Tmem136, Pou2f3, LOC628726, Oaf
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-098M19.T7 (MSMg01no098_m19.b1)MSMg01-098M19.TJ (MSMg01no098_m19.g1)
ACCAG314887AG314888
length686774
length of high quality
(start - end)
344 (54 - 397)350 (143 - 492)
definitionCHROMAT_FILE: MSMg01no098_m19.b1 PHD_FILE: MSMg01no098_m19.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:56:01 2005CHROMAT_FILE: MSMg01no098_m19.g1 PHD_FILE: MSMg01no098_m19.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:56:01 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(42,058,537 - 42,058,880)(41,924,568 - 41,924,915)
sequence
GCGGCGCTAAACGACTCCTATCGAGAGAGGACCGCGGAATTCGACCCTCT
CCAGTGTAGACATTGGGTTCGGGGCAGGGTATATCCTGGTGTCTTACGCC
TGATAGACTCAGCACAGCCTCACACTTCTAAGATGGGAAACTATGCAGAG
ATAGAGTCTGCCTCTCAGGAGACAGCTGTAGTCCAAGATTGGGTTTCAAT
CCTTGGTTACCTCAGTGCTGGTAGGGGAGATACCTGTCTACAATTTTTTA
ATTGTTTTTTTTTATGTGCACAGATGTCTTGCCTGTGTGTCTGTCTGCAC
ACCGTGCACATGCAGTGCTCAAGGATGCCAAACAGGCATCATGACCCCTG
CATCTGTAGTTTCAGACAGTTGTGAGCCTCTATGAGTGCTGGGAATTAAC
TGTGTCCACTGCAAGGACAACCAGTGCTCTTAAATGCTGAGTTCTCTCCA
GCCCCTATGTCCAGTTTTTATAAGAAACTGTCCACTGGATTCCTGAGCAG
TTGTATCATCCTATAGTCCCACTACCAATGCGAGAATTCTGCTTTCCCCA
CAGCCTTACTAACAATATTGCCAATCTTTATTCTCACGGTATTATCGGGG
ATTAATTTCCATTTTTTCACGATCAATACAGGTACACCCCCCACAAAATA
AACAGATTACTACGTCTTTTCCTATATGTTCAAGGC
NNNNNNNNNNNNNNNNNNNNNNNNNNTTTTTTTNNTTTCNTTCTCCCCTC
TTTTCTCTCACCCTCCCCCCCCGATGATAXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCTAGCTGT
GTTTTTAATCTAATTCAGGGGCCTGGAGATAAATCATCCTGAAGGGTCCC
GATTTTCCAAGCCAAGAGCCTGCAGCCGCGGCAGCAACAGCAATGGCATG
CTAAGTTAAAGGGCCAGCCAGCAAGGAGGGGGGCTTCAGTACAGTGATGG
AGACCACACACCTCTATTGTTTGTCTTGGTGCCAGCCTGAAGGGTGGAAG
GGATGGAAGACAGAGCCAGGTCCACTGGGGTAAGTCAGTAAGAGTACAGG
AAGTGGAGGACGGGGACAAAGAGGCTGCCTCACCGCTAACAGCTCCCTGC
TAAGACTCTCAGGATCCGCACACCTCCGCACACCTCCGCATACTTCTTGC
ATAGCTGGGTTGGCCCTGGGCTGTTAGCATGAGCACAGCACAAGAGAAAA
GGCACTCAGGTTTAAAGAGCTTGTCTGAAGGGTCAGCCTTCCTAGGGCCT
GATGCATGGAGGTAACTGTGCAGAGGCAACCCTCCCCCAATGAATATAGT
TGCCACTCATCCTTCATAGGGTGTCATGAAGTCCGCCTTATTCTTCATTA
TTCTCTACGACCTAGGGTTAGTCCAAAGTGCTTACACTTTTGTTTCCTAC
TTTCCCCCGTCTATGATTTATTCC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no098_m19.b1 MSMg01no098_m19.b1 CHROMAT_FILE:
MSMg01no098_m19.b1 PHD_FILE: MSMg01no098_m19.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:56:01 2005
         (344 letters)



>mm_chr9_42058483_42059226
          Length = 744

 Score =  665 bits (344), Expect = 0.0
 Identities = 344/344 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   gtgtagacattgggttcggggcagggtatatcctggtgtcttacgcctgatagactcagc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 398 gtgtagacattgggttcggggcagggtatatcctggtgtcttacgcctgatagactcagc 339

                                                                       
Query: 61  acagcctcacacttctaagatgggaaactatgcagagatagagtctgcctctcaggagac 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 338 acagcctcacacttctaagatgggaaactatgcagagatagagtctgcctctcaggagac 279

                                                                       
Query: 121 agctgtagtccaagattgggtttcaatccttggttacctcagtgctggtaggggagatac 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 278 agctgtagtccaagattgggtttcaatccttggttacctcagtgctggtaggggagatac 219

                                                                       
Query: 181 ctgtctacaattttttaattgtttttttttatgtgcacagatgtcttgcctgtgtgtctg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 218 ctgtctacaattttttaattgtttttttttatgtgcacagatgtcttgcctgtgtgtctg 159

                                                                       
Query: 241 tctgcacaccgtgcacatgcagtgctcaaggatgccaaacaggcatcatgacccctgcat 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 158 tctgcacaccgtgcacatgcagtgctcaaggatgccaaacaggcatcatgacccctgcat 99

                                                       
Query: 301 ctgtagtttcagacagttgtgagcctctatgagtgctgggaatt 344
           ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98  ctgtagtttcagacagttgtgagcctctatgagtgctgggaatt 55


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: 2
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: 344
Length of database: 744
Length adjustment: 9
Effective length of query: 335
Effective length of database: 735
Effective search space:   246225
Effective search space used:   246225
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= MSMg01no098_m19.g1 MSMg01no098_m19.g1 CHROMAT_FILE:
MSMg01no098_m19.g1 PHD_FILE: MSMg01no098_m19.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:56:01 2005
         (350 letters)



>mm_chr9_41924368_41925117
          Length = 750

 Score =  673 bits (348), Expect = 0.0
 Identities = 348/348 (100%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  ttttccaagccaagagcctgcagccgcggcagcaacagcaatggcatgctaagttaaagg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 ttttccaagccaagagcctgcagccgcggcagcaacagcaatggcatgctaagttaaagg 320

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

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

                                                                       
Query: 241 agtcagtaagagtacaggaagtggaggacggggacaaagaggctgcctcaccgctaacag 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 agtcagtaagagtacaggaagtggaggacggggacaaagaggctgcctcaccgctaacag 500

                                                           
Query: 301 ctccctgctaagactctcaggatccgcacacctccgcacacctccgca 348
           ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 ctccctgctaagactctcaggatccgcacacctccgcacacctccgca 548


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: 20
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: 350
Length of database: 750
Length adjustment: 9
Effective length of query: 341
Effective length of database: 741
Effective search space:   252681
Effective search space used:   252681
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)