BAC Information

Click to search

BAC

Clone NameMSMg01-516F11
Chromosome12 (Build37)
Map Location 118,991,309 - 119,127,840
singlet/doubletdoublet
Overlap geneRapgef5, Cdca7l, Dnahc11
Upstream genePtprn2, LOC432713, LOC100042461, A930023M06Rik
Downstream geneSp4, LOC100042993, LOC668611, EG668615, LOC620665, Sp8, Abcb5
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-516F11.T7 (MSMg01no516_f11.b1)MSMg01-516F11.TJ (MSMg01no516_f11.g1)
ACCAG588362AG588363
length757767
length of high quality
(start - end)		624 (49 - 672)584 (81 - 664)
definitionCHROMAT_FILE: MSMg01no516_f11.b1 PHD_FILE: MSMg01no516_f11.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:48:01 2005CHROMAT_FILE: MSMg01no516_f11.g1 PHD_FILE: MSMg01no516_f11.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:48:01 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(118,991,309 - 118,991,928)(119,127,370 - 119,127,840)
sequence
NTTACTTATAAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCG
CGGAATTCACTCTGCTTTCGTGAATACCTCACTTCCTGCTGTTGTTGGAG
CCCTCGAGTCCACAGAACCATCCGGCCTCCACTCAGGACATGGAAGTGGC
TCAGTTGGTAGAGTTGCCAGCTGAGCACTCCAGAGTCCCTGGGTTTGATC
CCTGCCCTGTAGAAACTGGGGCAGTGGCACAAATGTGAGCCTGTGCCCTG
AGTGTGCACAGCCCTCTCGTGGTGCCTGATTAGGAGGAAGGCAAAAGTCC
CAGAAATGACAGTAACCCAGAGTGTGCTGTACTCTAGGAACACCTCACCT
GCAGAGGAAACACAGGCAACATGTGGATGGGAAACTGGGGGCCCCAAAGA
TAGCATGCTCTCCTGTGGCTCAGAATACCTTGACTATTCGGGAGGCACTC
TTCTTGCAGTCACAAAATCAATAGTCTTGAATAATTCACACTGCATACAA
TCAATTAAAGTCATGTCCAGCTCCAAGTTGAGCTCTTTGCTTTATACCCA
GAGGGATTAGACTATTACCCATCCCAGGCAGGTTCTGTGGCATCAGTAAG
TGACCCTTCTGTTTCTGTGCTCCCCCTCTGTCTTTCAGCACATGATCGCA
GACACTGTCCGAACCCTGAGACACTGCAGGACTAACCAGTTTTGGTGAGT
AGCTGGACTTGGGGCACCATGCGCAATGGCTTTGAAGTGATGTTGACTCT
AAACATT

NNTTCTATTAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCAAGTCCAGAAAACCAAATC
TGCAGGGGTTTGGATATTTGAGTGCAACTGGGTAGTATCACTGGGGTGGA
ACCTGGTTGGTATTTTGATGGAAGATGACTAAGTAATAAAATCTTCATGC
TGGTCAAGTTGCAAAGCAAAGGACAGCAGCCAATGAGGGAAAGAGGCATC
ACTTACCATCCTTAATGGCCTGGTTGCCTTAAGAACTTACAGCCTTGCCA
GCCATAGTGGTTCATGCCTGTAATCCTAGCAAATGGAAGACAGGCAGGTA
TAGAAGTTAGAGGCTACATAGCAAGATCTTATCTGAAAAGAATTTTTTAA
AAACAGCCTCCCCCAATAAATAGATAAGAGTGTTTGTTTTAAACTTCTTC
AGCAAAATGAATCTCACTGTCACAGCTTTGCCACCCTGGCTGTAAGAGTT
TACAAGTCTCTAACACCAAGGCACAGAACAGGCTTTCTAGGTATGCGGAT
CTCTCTAACCTAGGAGGAGACATGGCTATTCTGTGCACATCTTGGTTTGT
CTTGACGCACAACAACCCACAAAGTATCCAAACCTCAATTCTTACTTAAA
TACTAAAAGTTTGGGAAGGAAGGTATAGTTGGTAATACTTGGGTCCACTT
AACTTTAAAGAAAGCCCAAACACTCCTGTTTTCTTTGTAAGGTTTTACTT
GAGACTCTGTCTACTGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no516_f11.b1 MSMg01no516_f11.b1 CHROMAT_FILE:
MSMg01no516_f11.b1 PHD_FILE: MSMg01no516_f11.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:48:01 2005
         (624 letters)



>mm_chr12_118991105_118992128
          Length = 1024

 Score = 1176 bits (608), Expect = 0.0
 Identities = 617/620 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcactctgctttcgtgaatacctcacttcctgctgttgttggagccctcgagtcca 64
           |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattcactctgctttcgcgaatacctcacttcctgctgttgttggagccctcgagtcca 264

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

                                                                       
Query: 125 gagcactccagagtccctgggtttgatccctgccctgtagaaactggggcagtggcacaa 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 325 gagcactccagagtccctgggtttgatccctgccctgtagaaactggggcagtagcacaa 384

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

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

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

                                                                       
Query: 365 ctgtggctcagaataccttgactattcgggaggcactcttcttgcagtcacaaaatcaat 424
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 565 ctgtggctcagaataccttgactattcgggaggcactcttcttgcagtcacaaaatcaat 624

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

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

                                                                       
Query: 545 tcagtaagtgacccttctgtttctgtgctccccctctgtctttcagcacatgatcgcaga 604
           |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct: 745 tcagtaagtgacccttctgtttctgtgctccccctctgtctttcagcacatgattgcaga 804

                               
Query: 605 cactgtccgaaccctgagac 624
           ||||||||||||||||||||
Sbjct: 805 cactgtccgaaccctgagac 824


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: 624
Length of database: 1024
Length adjustment: 10
Effective length of query: 614
Effective length of database: 1014
Effective search space:   622596
Effective search space used:   622596
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= MSMg01no516_f11.g1 MSMg01no516_f11.g1 CHROMAT_FILE:
MSMg01no516_f11.g1 PHD_FILE: MSMg01no516_f11.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:48:01 2005
         (584 letters)



>mm_chr12_119126858_119127841
          Length = 984

 Score =  888 bits (459), Expect = 0.0
 Identities = 468/471 (99%)
 Strand = Plus / Minus

                                                                       
Query: 114 ttcatgctggtcaagttgcaaagcaaaggacagcagccaatgagggaaagaggcatcact 173
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 983 ttcatgctggtcaagttgcaaagcaaaggacagcagccaatgagggaaagaggcattact 924

                                                                       
Query: 174 taccatccttaatggcctggttgccttaagaacttacagccttgccagccatagtggttc 233
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 923 taccatccttaatggcctggttgccttaagaacttacagccttgccagccatagtggttc 864

                                                                       
Query: 234 atgcctgtaatcctagcaaatggaagacaggcaggtatagaagttagaggctacatagca 293
           |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct: 863 atgcctgtaatcctagcaaatggaaggcaggcaggtatagaagttagaggctacatagca 804

                                                                       
Query: 294 agatcttatctgaaaagaattttttaaaaacagcctcccccaataaatagataagagtgt 353
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 803 agatcttatctgaaaagaattttttaaaaacagcctcccccaataaatagataagagtgt 744

                                                                       
Query: 354 ttgttttaaacttcttcagcaaaatgaatctcactgtcacagctttgccaccctggctgt 413
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 743 ttgttttaaacttcttcagcaaaatgaatctcactgtcacagctttgccaccctggctgt 684

                                                                       
Query: 414 aagagtttacaagtctctaacaccaaggcacagaacaggctttctaggtatgcggatctc 473
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 683 aagagtttacaagtctctaacaccaaggcacagaacaggctttctaggtatgcggatctc 624

                                                                       
Query: 474 tctaacctaggaggagacatggctattctgtgcacatcttggtttgtcttgacgcacaac 533
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 623 tctaacctaggaggagacatggctattctgtgcacatcttggtttgtcttgacgcacaac 564

                                                              
Query: 534 aacccacaaagtatccaaacctcaattcttacttaaatactaaaagtttgg 584
           |||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 563 aacccacaaaatatccaaacctcaattcttacttaaatactaaaagtttgg 513


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: 22
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: 584
Length of database: 984
Length adjustment: 10
Effective length of query: 574
Effective length of database: 974
Effective search space:   559076
Effective search space used:   559076
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 |