BAC Information

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BAC

Clone NameMSMg01-299O01
Chromosome2 (Build37)
Map Location 181,234,560 - 181,272,908
singlet/doubletdoublet
Overlap geneTpd52l2, Dnajc5
Upstream geneNtsr1, 1600027N09Rik, Ogfr, Col9a3, Tcfl5, Dido1, 2310003C23Rik, 1700019H03Rik, Bhlhb4, OTTMUSG00000016394, Ythdf1, Birc7, C030019F02Rik, LOC100039607, Arfgap1, Col20a1, Chrna4, Kcnq2, Eef1a2, 2700038C09Rik, Ptk6, Srms, LOC622592, BC051628, BC006779, Gmeb2, EG665467, Stmn3, Rtel1, Arfrp1, Zgpat, Lime1, Btbd4, BC050777
Downstream geneUckl1, Znf512b, Samd10, Prpf6, LOC100039697, Sox18, Tcea2, Rgs19, 4930526D03Rik, Oprl1, LOC665538, Myt1, Pcmtd2, Polr3k, EG432881, LOC672125
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-299O01.T7 (MSMg01no299_o01.b1)MSMg01-299O01.TJ (MSMg01no299_o01.g1)
ACCAG426528AG426529
length727740
length of high quality
(start - end)		690 (36 - 725)657 (82 - 738)
definitionCHROMAT_FILE: MSMg01no299_o01.b1 PHD_FILE: MSMg01no299_o01.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:36:55 2005CHROMAT_FILE: MSMg01no299_o01.g1 PHD_FILE: MSMg01no299_o01.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:36:55 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(181,234,560 - 181,235,245)(181,272,250 - 181,272,908)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCTCCTA
ACAACGGTGTGCTGTCTGACTTTATGACTGACGTCCCTGTTGACCCAGGT
GTGGTCCACCGGACTCCAGTTGTAGAAGGCCTGACAGAGGGGGAGGAAGA
AGAGCTTCGGGCTGAGCTTGCTAAGGTACTGTGGTTTTATTTTCTGTCTA
GAGATGATCATGAGTCCTTCTGGGTTATACAGAGAGTAGAACACAGCATA
TGCAGTGACAGAGCTGTTGCTGGCCTGCTACTTGCTTTCTGTGTCTACTG
GGCTATCTCTTTGTATGTGCCTATTTCTGAAAAGTAGACTGAGTCACCTG
GTGGAGGTGGCAGGGTCTGATCTCATCTCACCACCTCTGTCTGGAAACAC
TAGGTGCTGCATGAAGAGGATGCCTATACAATAGTGTCTACACGTGTGCT
GTTTGCTGGTATTAACATTTGAATGTCATTTTTAAGATATCATTAATCTG
TCCACTGGATCTTTTTAGTTTTATTTGTTTTAGGTTGGCTCTAACTCATA
ATCCTCCTTCCTCTCTCTATCTTCCAAGTGCTGCGATTACAAGCAATTGC
CACAATGTTTAATTTTGTTTCTTTTTATTGTCTTTTTAATAAGGCATTTT
ACCCCCATGTGGAGTTAAGAAATTCTCTTAAATAGCTGAGACTATAGGAC
TACTGTACCAACATGCTGACTGAGAAG

CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTAAAAAAGGTCCCAGGTGA
GAGGTGCACCCTCTGGGAACAGAGCAGGTTCCAGTAGCTTTGTCCCTTTA
AGAGAGAAGAGAGGCCGCCAGCTGCTCGGTAGATAAAGGGAACTGAAGTA
AACGGTTCATAGACGCAGGTTCTTGACCAGCAGAGCTACAGGGTCCTGGA
AGCCTTGCGCTCCCAAGGCAGCGAAAGCAACACTGGCAGCTGGGGCTGCA
TAGACCAGTTCCCAGCTGCTCAGGCTCAGCTCTCAGAAGCAGCAACATGC
TGCCATTGGAGCCACCTTCCCAGAGTAGGCAGCAATCATAGAGCAGGACC
AGCCCCCAATAGGCTCCTCTGAAAGCTTACCCAAGGAAGGGTGGAGCCAG
GAGCCAGCAGTCTGCTGGAAAGAGCTGAGGGGGCAGAGGAAACCAACTAT
AGACTCTGGCAGGAGGAACCTCTCCCTCATCTCATGGGCCCAACAACCTC
CCAGAGCAGTTAAACCCCTTAAACCTGAGACTTGGCTAGGGCCAGCTATA
GAAATGGGTGGAAATGCCTCTTCCTGGTGGAGAAAGGGCAGGGGTGGAGC
TAGTCACAGGATGTGAAGTAGAAGCCAGACACTGATTGAGAGAACACATG
AAGAAATCCAAGCACAGACAAACTTTGGATCAGATAAAAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no299_o01.b1 MSMg01no299_o01.b1 CHROMAT_FILE:
MSMg01no299_o01.b1 PHD_FILE: MSMg01no299_o01.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:36:55 2005
         (690 letters)



>mm_chr2_181234356_181235445
          Length = 1090

 Score = 1295 bits (670), Expect = 0.0
 Identities = 682/686 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattctcctaacaacggtgtgctgtctgactttatgactgacgtccctgttgacccagg 64
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattctcctaacaaaggtgtgctgtctgactttatgactgacgtccctgttgacccagg 264

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

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

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

                                                                       
Query: 245 acttgctttctgtgtctactgggctatctctttgtatgtgcctatttctgaaaagtagac 304
           ||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 445 acttgctttctgtgtctactgggctatctctttgtatgtgcctatttctaaaaagtagac 504

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

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

                                                                       
Query: 425 tattaacatttgaatgtcatttttaagatatcattaatctgtccactggatctttttagt 484
           |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 625 tattaacatttgaatgtcatttttaagatatcgttaatctgtccactggatctttttagt 684

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

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

                                                                       
Query: 605 taaggcattttacccccatgtggagttaagaaattctcttaaatagctgagactatagga 664
           ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 805 taaggcattttacccccatgtggggttaagaaattctcttaaatagctgagactatagga 864

                                     
Query: 665 ctactgtaccaacatgctgactgaga 690
           ||||||||||||||||||||||||||
Sbjct: 865 ctactgtaccaacatgctgactgaga 890


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: 36
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: 690
Length of database: 1090
Length adjustment: 10
Effective length of query: 680
Effective length of database: 1080
Effective search space:   734400
Effective search space used:   734400
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= MSMg01no299_o01.g1 MSMg01no299_o01.g1 CHROMAT_FILE:
MSMg01no299_o01.g1 PHD_FILE: MSMg01no299_o01.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:36:55 2005
         (657 letters)



>mm_chr2_181272050_181273108
          Length = 1059

 Score = 1220 bits (631), Expect = 0.0
 Identities = 652/659 (98%), Gaps = 2/659 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   taaaaaaggtcccaggtgagaggtgcaccctctgggaacagagcaggttccagtagcttt 60
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 859 taaaaaaggtcccaggtgagaggtgcaccccctgggaacagagcaggttccagtagcttt 800

                                                                       
Query: 61  gtccctttaagagagaagagaggccgccagctgctcggtagataaagggaactgaagtaa 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 799 gtccctttaagagagaagagaggccgccagctgctcggtagataaagggaactgaagtaa 740

                                                                       
Query: 121 acggttcatagacgcaggttcttgaccagcagagctacagggtcctggaagccttgcgct 180
           ||||||||||||||||||||||||||||| ||| |||||||||||||||||||||| |||
Sbjct: 739 acggttcatagacgcaggttcttgaccaggagaactacagggtcctggaagccttgtgct 680

                                                                       
Query: 181 cccaaggcagcgaaagcaacactggcagctggggctgcatagaccagttcccagctgctc 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 679 cccaaggcagcgaaagcaacactggcagctggggctgcatagaccagttcccagctgctc 620

                                                                       
Query: 241 aggctcagctctcagaagcagcaacatgctgccat-tggagccaccttcccagagtaggc 299
           ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 619 aggctcagctctcagaagcagcaacatgctgccatctggagccaccttcccagagtaggc 560

                                                                       
Query: 300 agcaatcatagagcaggaccagcccccaataggctcctctgaaagcttacccaaggaagg 359
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 559 agcaatcatagagcaggaccagcccccaataggctcctctgaaagcttacccaaggaagg 500

                                                                       
Query: 360 gtggagccaggagccagcagtctgctggaaagagctgagggggcagaggaaaccaactat 419
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 499 gtggagccaggagccagcagtctgctggaaagagctgagggggcagaggaaaccaactat 440

                                                                       
Query: 420 agactctggcaggaggaacctctccctcatctcatgggcccaacaacctcccagagcagt 479
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 439 agactctggcaggaggaacctctccctcatctcatgggcccaacaacctcccagagcagt 380

                                                                       
Query: 480 taaaccccttaaacctgagacttggctagggccagctatagaaatgggtggaaatgcctc 539
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 379 taaaccccttaaacctgagacttggctagggccagctatagaaatgggtggaaatgcctc 320

                                                                       
Query: 540 ttcctggtg-gagaaagggcaggggtggagctagtcacaggatgtgaagtagaagccaga 598
           ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 319 ttcctggtgagagaaagggcaggggtggagctagtcacaggatgtgaagtagaagccaga 260

                                                                      
Query: 599 cactgattgagagaacacatgaagaaatccaagcacagacaaactttggatcagataaa 657
           ||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct: 259 cactgattgagagaacacatgaagaaagccaagcacagacaaactttggatcagataaa 201


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: 4
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 657
Length of database: 1059
Length adjustment: 10
Effective length of query: 647
Effective length of database: 1049
Effective search space:   678703
Effective search space used:   678703
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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