BAC Information

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BAC

Clone NameMSMg01-475L21
Chromosome9 (Build37)
Map Location 118,882,569 - 119,037,866
singlet/doubletdoublet
Overlap geneCtdspl, Vill, Plcd1, Dlec1
Upstream geneLOC100039681, Azi2, 2010110K16Rik, Eomes, Golga4, Itga9, LOC100039768
Downstream geneAcaa1b, EG546165, Slc22a14, Slc22a13, 9330176C04Rik, Oxsr1, Myd88, Acaa1a, Xylb, Acvr2b, Endogl1, Scn5a, Scn10a, Scn11a, LOC100039837, Wdr48, Gorasp1, Ttc21a, Axud1, Cmya1, Cx3cr1, Ccr8, Slc25a38, Rpsa
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-475L21.T7 (MSMg01no475_l21.b1)MSMg01-475L21.TJ (MSMg01no475_l21.g1)
ACCAG557497AG557498
length776761
length of high quality
(start - end)		249 (73 - 321)427 (78 - 504)
definitionCHROMAT_FILE: MSMg01no475_l21.b1 PHD_FILE: MSMg01no475_l21.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:54:37 2005CHROMAT_FILE: MSMg01no475_l21.g1 PHD_FILE: MSMg01no475_l21.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:54:37 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(118,882,569 - 118,882,817)(119,037,444 - 119,037,866)
sequence
ATTAATCCTCATGTCGCTATACGACTCACTATTTTCAGAGGATCCGCGGA
ATTCTGTAGAATTTGCAGAAGAATGTCAGCTCCCTAGCCTAGCTGACAGC
AGGACAACCCTGCATGTCACTACATATGACATTTACAGCTTAGGCAGGGA
AGACAGCCAGGTCAAGGAGAAGAGCCATTCTGTGGGTCCTTGTGGGAGCT
AAGGTGGAGGCCTGAAGGCAGAGGCCTGAAGTCCACGTCAAGTCTCTTTC
CCCTCTCAGCTCTCCACTTTATTTTTTGAGACAGGTTCTCTTACTAAACC
TGGGCCCACTGGTTGGGCAGGTCTTGTCAGCCTGTGAGCCCCAGGCTGTC
GTTGGTGTCATGGGACTATGGCACTGTGCCACCATGCCCAGCTGTCTTCG
TGGTTGGTGGGACTTGAACTTGAGTCCTCATTCTTACCCAGCGAGCAGTT
TACCAACTGAGCCACCTTGCCAGCCCCTCCCTTTAGATTTCCAACCCAGA
TTCCCTTTTGAGGACATCTGTACCTTGCCCCCCTGGGGCATCAGGAGGAA
GAGAGCACTCCTTCCAGTTTCCCCCGGAAGCCCCAGACCCCACAGTTCTG
AACCCCCCCAATCCTGAAAAGGACCCTCTGAACTGAAGAACTGGCACACA
GGGGAAAGGGCTCCCTCCTAACTACGGCGCTTTTAATCCCCTGTCCGTCG
TTTTTTTCTTTGCACCACATCCTCGGGCCGGCCTCTTCCCTTGTTAAGCG
CATCTTTTCTCCGGGGGTCTCACGCG

NNCCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXCACCCTAGAGACTGCGGCCTCAG
GGCAAGGATCCCAGTTCAGACAAGCACCAAGGGTGAGTGTCCCGTGGGGA
GGCCTGCAGGGTCCCACTTACATCCTCATCTCTCTCTGCCAGGCAGACTG
GGCTCTCCTTCAAATGCCACACGGCGGACAGCTGGCTGACATTCCGGATC
TGGATGGAGATGGAAGCCTTCTTTCCCAGGCGAAGCAGACCAAACTGAAG
GGCTGGGACATCAATGGTCACGGCAGGTCCCTGGAACACCAGAGGGGCGT
GACACTGCCTGACCGGGAAGTGACTGGGTCCTAACCTCTCCAGGCATTAC
TAGCTGCCCGGTTCCCACCCACCCTCCCACGGCACCTTAAATGAGGCCTC
GATGTGGAGTACCACCGGGCATGGTGAGTCTTTGATTTCACACTCCAGGT
CCTGGCTGGTTGGGTCCGGCACCCCCCCCGCTATGTTTACCTCCACATCT
CCCGACCTCTTTGGCCTCTGCAGAGGTACATGCCCCCCAGCCCCACATCC
GCTCCGCCCCACCCTTTCCTTCCCCCCTCCGTTCCGCCCCCCCTCCTCAC
CACTTTCTATCTTTTTTGTTCCCCTACTCCTCTCTTTTCCCTTCCCTTTG
GCTGTTCTCTCCCCCCTTTGCCCTTCCCCTATCCCCATTTCGCCCCTTTC
CCTTTATCCTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no475_l21.b1 MSMg01no475_l21.b1 CHROMAT_FILE:
MSMg01no475_l21.b1 PHD_FILE: MSMg01no475_l21.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:54:37 2005
         (249 letters)



>mm_chr9_118882369_118883017
          Length = 649

 Score =  474 bits (245), Expect = e-138
 Identities = 248/249 (99%)
 Strand = Plus / Plus

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

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

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

                                                                       
Query: 181 ctctcagctctccactttattttttgagacaggttctcttactaaacctgggcccactgg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 381 ctctcagctctccactttattttttgagacaggttctcttactaaacctgggctcactgg 440

                    
Query: 241 ttgggcagg 249
           |||||||||
Sbjct: 441 ttgggcagg 449


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: 249
Length of database: 649
Length adjustment: 9
Effective length of query: 240
Effective length of database: 640
Effective search space:   153600
Effective search space used:   153600
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= MSMg01no475_l21.g1 MSMg01no475_l21.g1 CHROMAT_FILE:
MSMg01no475_l21.g1 PHD_FILE: MSMg01no475_l21.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:54:37 2005
         (427 letters)



>mm_chr9_119037240_119038066
          Length = 827

 Score =  787 bits (407), Expect = 0.0
 Identities = 419/423 (99%)
 Strand = Plus / Minus

                                                                       
Query: 5   ctagagactgcggcctcagggcaaggatcccagttcagacaagcaccaagggtgagtgtc 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 627 ctagagactgcggcctcagggcaaggatcccagttcagacaagcaccaagggtgagtgtc 568

                                                                       
Query: 65  ccgtggggaggcctgcagggtcccacttacatcctcatctctctctgccaggcagactgg 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 567 ccgtggggaggcctgcagggtcccacttacatcctcatctctctctgccaggcagactgg 508

                                                                       
Query: 125 gctctccttcaaatgccacacggcggacagctggctgacattccggatctggatggagat 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 507 gctctccttcaaatgccacacggcggacagctggctgacattccggatctggatggagat 448

                                                                       
Query: 185 ggaagccttctttcccaggcgaagcagaccaaactgaagggctgggacatcaatggtcac 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| 
Sbjct: 447 ggaagccttctttcccaggcgaagcagaccaaactgaagggctgggacatcaatggtcaa 388

                                                                       
Query: 245 ggcaggtccctggaacaccagaggggcgtgacactgcctgaccgggaagtgactgggtcc 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 387 ggcaggtccctggaacaccagaggggcgtgacactgcctgaccgggaagtgactgggtcc 328

                                                                       
Query: 305 taacctctccaggcattactagctgcccggttcccacccaccctcccacggcaccttaaa 364
           ||||||||||||||||||| |||||||||||||||||||||||||||| |||||||||||
Sbjct: 327 taacctctccaggcattaccagctgcccggttcccacccaccctcccatggcaccttaaa 268

                                                                       
Query: 365 tgaggcctcgatgtggagtaccaccgggcatggtgagtctttgatttcacactccaggtc 424
           ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 267 tgaggcctcaatgtggagtaccaccgggcatggtgagtctttgatttcacactccaggtc 208

              
Query: 425 ctg 427
           |||
Sbjct: 207 ctg 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: 18
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: 427
Length of database: 827
Length adjustment: 9
Effective length of query: 418
Effective length of database: 818
Effective search space:   341924
Effective search space used:   341924
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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