BAC Information

Click to search

BAC

Clone NameMSMg01-290D03
Chromosome18 (Build37)
Map Location 33,610,089 - 33,766,243
singlet/doubletdoublet
Overlap geneD0H4S114, ENSMUSG00000073610, LOC666281
Upstream geneGypc, LOC100041160, LOC100041170, Tslp, Wdr36, Camk4, Stard4, EG433170
Downstream geneLOC100041258, Epb4.1l4a, EG666296, Ppia-ps18_318.1, Ppia-ps18_319.1, LOC666313, Apc, Srp19, Reep5, Pkd2l2, 2610024E20Rik, Wnt8a, Nme5, 4933408B17Rik, Brd8
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-290D03.T7 (MSMg01no290_d03.b1)MSMg01-290D03.TJ (MSMg01no290_d03.g1)
ACCAG419542AG419543
length755734
length of high quality
(start - end)		439 (46 - 484)496 (76 - 571)
definitionCHROMAT_FILE: MSMg01no290_d03.b1 PHD_FILE: MSMg01no290_d03.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:24:40 2005CHROMAT_FILE: MSMg01no290_d03.g1 PHD_FILE: MSMg01no290_d03.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:24:40 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(33,610,089 - 33,610,524)(33,765,748 - 33,766,243)
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCTTCATAATGCTCTCGTGTTTCTATTTGCCTCCCTTTTCCCTTGCT
GAAGATGAGTCCGGGGCCTTGTGGTTGCTAAACATTCATTCTACCATTGA
GCTTCATAACCCCGTCTATATGTGTGTTTTTAAAAAGCTGAAGGTATGTG
CATTTATTTATGGAGTTAGTGGTACTGGGGAGAGGGCCCAGTACCTTATG
CATGCCTGGCCAGCATTTCACCACAGTTTCACCCCAGTACCAGGCTCTAA
TCAATAATTTATTCCTCACCATTTTATTGTAAGGATGTGAGGGACTGACA
CACAGTAAGTGTGCCAGGGACAAGCACAGAAGTGGGTGCTCCTGGGACCA
CCCTCCTCCCACATACCATATGTAGATGCAAACACTGAGGGAAAGTTGGT
TTCTGTTCCAGGGTCACACAGCCAATGGAGAAGGCAGATGTCCCATGTTC
ACAGACCTGCCTGTCAGTACTGACACTGTGTGCCTGGAGTGAGACCTGGA
ATGTCTCCCTGAAGCCCTTTTGAGAGTTGAGGCCCACTTTTTAACCCCAA
AGGGTGCTGGCACCCCCTCCTGAGTGCCCCTGAAAGTTGAATTTTAGATT
TCCTAACACCCAACTGTCAAAAAGCCATTTTTCTCCAAATTAACCTGCTC
GTTTTTCTAAAAACCCAATTTTCCAAGGATAAAAACAGTGGGCTCGCTTT
CCATA

GAATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXCAGGCTCCATCCAAAATGTATTTTT
CCAGGACAGTAACTCCCACATGCAAACAGCCTTGTGACTGTGAGGGCTCT
TTTAAGTTGTGTAGGTAAATCTAGCTAAGGTGACAGCCTTACCAGGGGGC
TGTGGGTTGTCTCTCAGTAGACTTTCTATCCTGTCATGGCCATGACTCTT
CTATTGTCTTTAGGTTGTTCAGACTTTAGGCAGCGCTTCCTACTGAGATA
AATCTCTGATGGGTCTCACATACCCAGTACTAAGCAACTCATGATTTAAG
GCAGAAATAACATGGGCTGGTTTTCAATGTGGAACTACAGTCAGACATTT
CTCTTGAGAGCCAAAGAAAAGTCTCTGAGAAGTTCATGTAAAACTTGAGG
ATGGAAATAGGCTAATGGGGTCTTTCCAGGTCCATGTGACTCCATTAAGT
AAACCTTTTGTGGTTGTTCAGATTATGTTAAGTTCTCCTTATCTCTAGGA
ATAGTAGCCTTGGGTTGTCTTAATGGATTCAGTCTGCCTCATAGGGCTCT
TTGTGTACACACACACACACACACACACACACACACACACTCATTCATAC
TTTAATGTCCTTGGATAAAAGAAAAAGAAAGCTAGGCTTAAGCTCTTATA
AGTTCTGGGAATGAACGCTTGCTGACAATTGCTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no290_d03.b1 MSMg01no290_d03.b1 CHROMAT_FILE:
MSMg01no290_d03.b1 PHD_FILE: MSMg01no290_d03.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:24:40 2005
         (439 letters)



>mm_chr18_33609886_33610724
          Length = 839

 Score =  812 bits (420), Expect = 0.0
 Identities = 432/436 (99%)
 Strand = Plus / Plus

                                                                       
Query: 4   ggaattcttcataatgctctcgtgtttctatttgcctcccttttcccttgctgaagatga 63
           |||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||
Sbjct: 204 ggaattcttcataatgctctggtgtttctatttgcctcccttttcccttgctgaagatga 263

                                                                       
Query: 64  gtccggggccttgtggttgctaaacattcattctaccattgagcttcataaccccgtcta 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264 gtccggggccttgtggttgctaaacattcattctaccattgagcttcataaccccgtcta 323

                                                                       
Query: 124 tatgtgtgtttttaaaaagctgaaggtatgtgcatttatttatggagttagtggtactgg 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 324 tatgtgtgtttttaaaaagctgaaggtatgtgcatttatttatggagttagtggtactgg 383

                                                                       
Query: 184 ggagagggcccagtaccttatgcatgcctggccagcatttcaccacagtttcaccccagt 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 384 ggagagggcccagtaccttatgcatgcctggccagcatttcaccacagtttcaccccagt 443

                                                                       
Query: 244 accaggctctaatcaataatttattcctcaccattttattgtaaggatgtgagggactga 303
           |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct: 444 accaggctctaatcaataatttattcctcaccattttattgtaaggatgtgaggaactga 503

                                                                       
Query: 304 cacacagtaagtgtgccagggacaagcacagaagtgggtgctcctgggaccaccctcctc 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 504 cacacagtaagtgtgccagggacaagcacagaagtgggtgctcctgggaccaccctcctc 563

                                                                       
Query: 364 ccacataccatatgtagatgcaaacactgagggaaagttggtttctgttccagggtcaca 423
           ||||||| |||||||||||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 564 ccacatatcatatgtagatgcaaacactgagggaaagttggtatctgttccagggtcaca 623

                           
Query: 424 cagccaatggagaagg 439
           ||||||||||||||||
Sbjct: 624 cagccaatggagaagg 639


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: 20
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: 439
Length of database: 839
Length adjustment: 9
Effective length of query: 430
Effective length of database: 830
Effective search space:   356900
Effective search space used:   356900
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= MSMg01no290_d03.g1 MSMg01no290_d03.g1 CHROMAT_FILE:
MSMg01no290_d03.g1 PHD_FILE: MSMg01no290_d03.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:24:40 2005
         (496 letters)



>mm_chr18_33765548_33766443
          Length = 896

 Score =  928 bits (480), Expect = 0.0
 Identities = 492/496 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   caggctccatccaaaatgtatttttccaggacagtaactcccacatgcaaacagccttgt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||
Sbjct: 696 caggctccatccaaaatgtatttttccaggacagtaactcccacatgcaaagagccttgt 637

                                                                       
Query: 61  gactgtgagggctcttttaagttgtgtaggtaaatctagctaaggtgacagccttaccag 120
           ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 636 gactgtgagggctcttttaagttatgtaggtaaatctagctaaggtgacagccttaccag 577

                                                                       
Query: 121 ggggctgtgggttgtctctcagtagactttctatcctgtcatggccatgactcttctatt 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 576 ggggctgtgggttgtctctcagtagactttctatcctgtcatggccatgactcttctatt 517

                                                                       
Query: 181 gtctttaggttgttcagactttaggcagcgcttcctactgagataaatctctgatgggtc 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 516 gtctttaggttgttcagactttaggcagcgcttcctactgagataaatctctgatgggtc 457

                                                                       
Query: 241 tcacatacccagtactaagcaactcatgatttaaggcagaaataacatgggctggttttc 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 456 tcacatacccagtactaagcaactcatgatttaaggcagaaataacatgggctggttttc 397

                                                                       
Query: 301 aatgtggaactacagtcagacatttctcttgagagccaaagaaaagtctctgagaagttc 360
           ||||||||||||||||||||||||||||||||||| ||||||||||||| ||||||||||
Sbjct: 396 aatgtggaactacagtcagacatttctcttgagagtcaaagaaaagtctttgagaagttc 337

                                                                       
Query: 361 atgtaaaacttgaggatggaaataggctaatggggtctttccaggtccatgtgactccat 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 336 atgtaaaacttgaggatggaaataggctaatggggtctttccaggtccatgtgactccat 277

                                                                       
Query: 421 taagtaaaccttttgtggttgttcagattatgttaagttctccttatctctaggaatagt 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 276 taagtaaaccttttgtggttgttcagattatgttaagttctccttatctctaggaatagt 217

                           
Query: 481 agccttgggttgtctt 496
           ||||||||||||||||
Sbjct: 216 agccttgggttgtctt 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: 23
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: 496
Length of database: 896
Length adjustment: 10
Effective length of query: 486
Effective length of database: 886
Effective search space:   430596
Effective search space used:   430596
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 |