BAC Information

Click to search

BAC

Clone NameMSMg01-348J20
Chromosome6 (Build37)
Map Location 135,240,859 - 135,412,744
singlet/doubletdoublet
Overlap genePbp2, LOC100043890, Emp1
Upstream geneLOC100043660, Bcl2l14, Lrp6, Mansc1, Loh12cr1, LOC100043884, Dusp16, Crebl2, Gpr19, Cdkn1b, 1190002F15Rik, Apold1, Ddx47, Gprc5a, Gprc5d, LOC100043668, Hebp1, 8430419L09Rik, Gsg1
Downstream geneGrin2b, EG668137, LOC545887, E330021D16Rik
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-348J20.T7 (MSMg01no348_j20.b1)MSMg01-348J20.TJ (MSMg01no348_j20.g1)
ACCAG460669AG460670
length727732
length of high quality
(start - end)		574 (38 - 611)498 (71 - 568)
definitionCHROMAT_FILE: MSMg01no348_j20.b1 PHD_FILE: MSMg01no348_j20.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:39:58 2005CHROMAT_FILE: MSMg01no348_j20.g1 PHD_FILE: MSMg01no348_j20.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:39:58 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(135,412,174 - 135,412,744)(135,240,859 - 135,241,356)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCATT
AATAGGTTATCCATCCAAAAGTTGCCAACTTTAGGGTTTACATAGCCCTG
ACAGAGTATCTTTGAAGGCCCCATTCTGGAAAGATCTTCAGAATTCTGAG
GAGCACTAGAAAACCTATAGGATGTGGATTCTTCCAAGACCACCCTGCAA
ATCTATTGGCCTGGATACAATAAATCCAATTCAGGATTTTTGTTTCAGAG
ACTGTGTGTGTGATGGCCCATTTTCTGCAGAAAATCATGAGATGGGAACT
CTTAAATGGCAGACACGAATCTTCTTGTCCTTTGCTGAGTTTTTGGTGTC
ATGCTTGCGGCCATCCATTTATTTAACAAGTGTGTTTTAATTTATAGCTC
ATGTCCATCAGTTTAGTGTGTCTCTTTACCATGCATAGCAGGGTCTCCTC
AGCATCCAACATATCAACATAATGTATTGAGTCAATGGTCCTATCACTGT
TTACTCTCTACCAGATACGGAGCATCCCACTAAGGACACAAAACATTTGT
GACCAGAGAGCCACACCTGACGACTATGTGGCCTGTACATATCGAGAGCC
CCCCCCCAAGTGACAATTGAGAGAGAATCCCAGCATGTGGGGGCTGAAGC
AGTGCCAATATTGTGCATTGCAACACAACAATTAACAAAGCAGGGCGATC
ACCAGTTCAAAGCCCTCTTGGGCTACT

CXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXAATGAATTAAAATTATGGGGGTTAAACAGT
ATTTTAATTGTGTGTCAATTTGACTCCTCTATAGCTGTTAGAAGCAATAA
CGTCAGAGCACCATTTTTTTTTCCTCAAAGATTCAAAACTAAAATTTTAG
GCTTAGGAAGGGCAATTTAGATTCAATCCACAATTCAATTTGGGAAAACC
CTGTTTGCCTGGGTATAGTGGCACACATTTGTAACCCCAGCACATGGGAC
ATAGTGGCTATAGGATTGGGTATTCAAGGTCATCCTTAGTTACATAGGGA
GAGCAAGGCCAATCTGGATTACAAGACTCTGCCTCAAAAATCTTAGGGCC
CAGAAATGGTGGTGCATGACTTAAACTCTAATACTGGGGAATCAGGCTGG
TTTCTGTAATTCTGAGGTTGGCCTGGTTTACATAGTTCCAGACTATCCAG
GGAGACACAATGAAACTCTGTCTTTAAGAGAAATCCAATTTACATCTAAT
AATTTTAGAATTACTAACACACCAGGAATAGAGGCTCACTCCTGTAATCC
CAGCACTTCGAAGGCTGAGGCAGGAGGATTGTCAGGAGTTCCAGACTGAG
CTTCAAAGTGAAAGACCTTGTCCTAGTCCCCCTTAACCTCCCCGCAGAAA
AAACAATAAAGATAGTTCCCGGGCTAATGGTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no348_j20.b1 MSMg01no348_j20.b1 CHROMAT_FILE:
MSMg01no348_j20.b1 PHD_FILE: MSMg01no348_j20.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:39:58 2005
         (574 letters)



>mm_chr6_135411971_135412944
          Length = 974

 Score = 1104 bits (571), Expect = 0.0
 Identities = 571/571 (100%)
 Strand = Plus / Minus

                                                                       
Query: 4   ggaattcattaataggttatccatccaaaagttgccaactttagggtttacatagccctg 63
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 774 ggaattcattaataggttatccatccaaaagttgccaactttagggtttacatagccctg 715

                                                                       
Query: 64  acagagtatctttgaaggccccattctggaaagatcttcagaattctgaggagcactaga 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 714 acagagtatctttgaaggccccattctggaaagatcttcagaattctgaggagcactaga 655

                                                                       
Query: 124 aaacctataggatgtggattcttccaagaccaccctgcaaatctattggcctggatacaa 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 654 aaacctataggatgtggattcttccaagaccaccctgcaaatctattggcctggatacaa 595

                                                                       
Query: 184 taaatccaattcaggatttttgtttcagagactgtgtgtgtgatggcccattttctgcag 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 594 taaatccaattcaggatttttgtttcagagactgtgtgtgtgatggcccattttctgcag 535

                                                                       
Query: 244 aaaatcatgagatgggaactcttaaatggcagacacgaatcttcttgtcctttgctgagt 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 534 aaaatcatgagatgggaactcttaaatggcagacacgaatcttcttgtcctttgctgagt 475

                                                                       
Query: 304 ttttggtgtcatgcttgcggccatccatttatttaacaagtgtgttttaatttatagctc 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 474 ttttggtgtcatgcttgcggccatccatttatttaacaagtgtgttttaatttatagctc 415

                                                                       
Query: 364 atgtccatcagtttagtgtgtctctttaccatgcatagcagggtctcctcagcatccaac 423
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 414 atgtccatcagtttagtgtgtctctttaccatgcatagcagggtctcctcagcatccaac 355

                                                                       
Query: 424 atatcaacataatgtattgagtcaatggtcctatcactgtttactctctaccagatacgg 483
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 354 atatcaacataatgtattgagtcaatggtcctatcactgtttactctctaccagatacgg 295

                                                                       
Query: 484 agcatcccactaaggacacaaaacatttgtgaccagagagccacacctgacgactatgtg 543
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 294 agcatcccactaaggacacaaaacatttgtgaccagagagccacacctgacgactatgtg 235

                                          
Query: 544 gcctgtacatatcgagagcccccccccaagt 574
           |||||||||||||||||||||||||||||||
Sbjct: 234 gcctgtacatatcgagagcccccccccaagt 204


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: 27
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: 574
Length of database: 974
Length adjustment: 10
Effective length of query: 564
Effective length of database: 964
Effective search space:   543696
Effective search space used:   543696
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= MSMg01no348_j20.g1 MSMg01no348_j20.g1 CHROMAT_FILE:
MSMg01no348_j20.g1 PHD_FILE: MSMg01no348_j20.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:39:58 2005
         (498 letters)



>mm_chr6_135240659_135241556
          Length = 898

 Score =  963 bits (498), Expect = 0.0
 Identities = 498/498 (100%)
 Strand = Plus / Plus

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

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

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

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

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

                                                                       
Query: 301 acaagactctgcctcaaaaatcttagggcccagaaatggtggtgcatgacttaaactcta 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 acaagactctgcctcaaaaatcttagggcccagaaatggtggtgcatgacttaaactcta 560

                                                                       
Query: 361 atactggggaatcaggctggtttctgtaattctgaggttggcctggtttacatagttcca 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 atactggggaatcaggctggtttctgtaattctgaggttggcctggtttacatagttcca 620

                                                                       
Query: 421 gactatccagggagacacaatgaaactctgtctttaagagaaatccaatttacatctaat 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 gactatccagggagacacaatgaaactctgtctttaagagaaatccaatttacatctaat 680

                             
Query: 481 aattttagaattactaac 498
           ||||||||||||||||||
Sbjct: 681 aattttagaattactaac 698


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: 25
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: 498
Length of database: 898
Length adjustment: 10
Effective length of query: 488
Effective length of database: 888
Effective search space:   433344
Effective search space used:   433344
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)


| Home | SequenceCutter | Blast | Download |