BAC Information

Click to search

BAC

Clone NameMSMg01-181A08
Chromosome1 (Build37)
Map Location 60,817,329 - 60,959,636
singlet/doubletdoublet
Overlap geneCd28, LOC667555, Rpl18-rs8
Upstream geneB430105G09Rik, LOC100043007, Bmpr2, Als2cr13, LOC100042496, Ica1l, Wdr12, Carf, Nbeal1, Cyp20a1, Abi2, Raph1, LOC100043027, LOC100042533, Eif4a-ps4
Downstream geneCtla4, LOC100043049, Icos, LOC433313, LOC100042566, Pard3b
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-181A08.T7 (MSMg01no181_a08.b1)MSMg01-181A08.TJ (MSMg01no181_a08.g1)
ACCAG374329AG374330
length722719
length of high quality
(start - end)		344 (379 - 722)645 (75 - 719)
definitionCHROMAT_FILE: MSMg01no181_a08.b1 PHD_FILE: MSMg01no181_a08.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:54:24 2005CHROMAT_FILE: MSMg01no181_a08.g1 PHD_FILE: MSMg01no181_a08.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:54:24 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(60,959,294 - 60,959,636)(60,817,329 - 60,817,973)
sequence
GCGTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCG
CGGAATTCCAAAGGAGGTATATACTCAGGTGAGGTAACGAAACCCCCCCC
CAGCTTAATCATAAAATCCTGAGTTTTATTCAACTTTTTCTTATCTTTGA
ATTTTTTCCTTTCCCTTTTTTTTTCCCCAATAAGTACGCCCAAACTACCA
GCCTTTGGTTGAAAGATTTGCACCTGGCACTGAGTACACTACACACTGCA
AAAACATCTTTGCTTGATGGTTTCAGGGGTAATGGGAAGAATGAAGAGGC
TAATATTTGCATAGTGTGCAGTTTCAGGACATCCCATTACCGTTGAGCTC
ATAATCTTGTCTAATTAAGGCAACTATATGCTTTATTTTCATGTTAATTA
GCTCATCACACTCCAGCTCCTTTCAACATCAACTTCAAAGGAAAAAGGTA
ATCATCTACCAAAATAAGAGATTGCTGAAGAAGAATTTATCAGTCTCACT
TCGAAAGAGAGAGAAAAAGGAAACGCTATGCAAAGTGACTGGAAAGAGAG
GGTAGCTTCACTACAACGAAACAGTGGAAATATGGGCCGAGCCAGGCCGA
TTTAAATAAATGTAGCTGATTAATTTCAGTCCCTAGGCAACAAGAATCCA
CACCATAAATTAGGTTAAAAATGGATGCTTCTGAGTTGTTGAGTTTCTGT
GGGTTCTTTCATAGGAATATAN

AATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXATGTGTAGGAAATCTGTTTTCCTTCT
CACATGTGTCTTGGGAAGATGCCATCTGCTGAATCAGACAGGGATTACTA
AAAGAACATTGGAGTTTGGATGTTGGAGCTTGTCCTTTCCCTCTAGCTCC
TCCCTACCCCTACACAGATGTTCACAGTAGCATTGCTCATAACAGGCAAA
AAAATGTTGAGTGTAAAAACAAAATGTACTACAGCTGCACAACAGAATAG
TCATAAACTGGAGTTCTGATACTTTATCACATCACACACGAAACTTGAAA
ATAGCTATATGAAAGACGCCAGATACAAAACGACACACATACTGTGATTT
CAAACATAGGATATGTCCTGAATGGGCAAGTAGAGACAAGAAGTAGAGGA
GTGGTTGCCAGGGGCTGGAGGGAGAGCATGACGGGAACTGATGGCTCCTG
CGATGGACGTTTCCTTTTCGTGTAATGAAAATGTTTTACAGAAATGGTGG
TCCACTCACAACTCCCATTGTATTAAAAAAAATCCCTTAATCGTGTTTTT
AACAAGAAGAACTTTATGATACGTGAATTACATTTCAGTAAAGTTATTTC
AACCCAAATATCAACACTAACCACATCTTAACTTATATCAAATATATCAG
AATTTCTGAGAGTAAGAGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no181_a08.b1 MSMg01no181_a08.b1 CHROMAT_FILE:
MSMg01no181_a08.b1 PHD_FILE: MSMg01no181_a08.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:54:24 2005
         (344 letters)



>mm_chr1_60959094_60959837
          Length = 744

 Score =  663 bits (343), Expect = 0.0
 Identities = 343/343 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   tgctttattttcatgttaattagctcatcacactccagctcctttcaacatcaacttcaa 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 543 tgctttattttcatgttaattagctcatcacactccagctcctttcaacatcaacttcaa 484

                                                                       
Query: 61  aggaaaaaggtaatcatctaccaaaataagagattgctgaagaagaatttatcagtctca 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 483 aggaaaaaggtaatcatctaccaaaataagagattgctgaagaagaatttatcagtctca 424

                                                                       
Query: 121 cttcgaaagagagagaaaaaggaaacgctatgcaaagtgactggaaagagagggtagctt 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 423 cttcgaaagagagagaaaaaggaaacgctatgcaaagtgactggaaagagagggtagctt 364

                                                                       
Query: 181 cactacaacgaaacagtggaaatatgggccgagccaggccgatttaaataaatgtagctg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 363 cactacaacgaaacagtggaaatatgggccgagccaggccgatttaaataaatgtagctg 304

                                                                       
Query: 241 attaatttcagtccctaggcaacaagaatccacaccataaattaggttaaaaatggatgc 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 303 attaatttcagtccctaggcaacaagaatccacaccataaattaggttaaaaatggatgc 244

                                                      
Query: 301 ttctgagttgttgagtttctgtgggttctttcataggaatata 343
           |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 243 ttctgagttgttgagtttctgtgggttctttcataggaatata 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: 16
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= MSMg01no181_a08.g1 MSMg01no181_a08.g1 CHROMAT_FILE:
MSMg01no181_a08.g1 PHD_FILE: MSMg01no181_a08.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:54:24 2005
         (645 letters)



>mm_chr1_60817129_60818173
          Length = 1045

 Score = 1224 bits (633), Expect = 0.0
 Identities = 642/645 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   atgtgtaggaaatctgttttccttctcacatgtgtcttgggaagatgccatctgctgaat 60
           ||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 201 atgtgtaggaaatctgttttccttctcacatgtgtcttgggaagatgtcatctgctgaat 260

                                                                       
Query: 61  cagacagggattactaaaagaacattggagtttggatgttggagcttgtcctttccctct 120
           |||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct: 261 cagacagggattactaaaagaacattggagtttggatgttggagcttgtcctatccctct 320

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

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

                                                                       
Query: 241 tctgatactttatcacatcacacacgaaacttgaaaatagctatatgaaagacgccagat 300
           |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 441 tctgatactttatcacatcacacacgaaacttgaaaatagctatgtgaaagacgccagat 500

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

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

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

                                                                       
Query: 481 ctcacaactcccattgtattaaaaaaaatcccttaatcgtgtttttaacaagaagaactt 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 ctcacaactcccattgtattaaaaaaaatcccttaatcgtgtttttaacaagaagaactt 740

                                                                       
Query: 541 tatgatacgtgaattacatttcagtaaagttatttcaacccaaatatcaacactaaccac 600
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 741 tatgatacgtgaattacatttcagtaaagttatttcaacccaaatatcaacactaaccac 800

                                                        
Query: 601 atcttaacttatatcaaatatatcagaatttctgagagtaagagg 645
           |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 801 atcttaacttatatcaaatatatcagaatttctgagagtaagagg 845


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: 31
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: 645
Length of database: 1045
Length adjustment: 10
Effective length of query: 635
Effective length of database: 1035
Effective search space:   657225
Effective search space used:   657225
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 |