BAC Information

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BAC

Clone NameMSMg01-128J16
Chromosome1 (Build37)
Map Location 90,104,520 - 90,244,971
singlet/doubletdoublet
Overlap geneUgt1a@, Ugt1a10, Ugt1a9, Ugt1a7c, Ugt1a6a, Ugt1a6b, Ugt1a5, Ugt1a2, Ugt1a1, LOC100040766, 6430706D22Rik, LOC100038822, Trpm8
Upstream geneChrng, Eif4e2, Efhd1, Tnrc15, LOC100040600, LOC100040591, 3110079O15Rik, Ngef, LOC620454, Neu2, Inpp5d, Atg16l1, Sag, Usp40, LOC545344, LOC677561, Dnajb3
Downstream geneSpp2, Glrp1, Arl4c, LOC100040127, 2410088K16Rik, LOC208347, Sh3bp4, LOC383542
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-128J16.T7 (MSMg01no128_j16.b1)MSMg01-128J16.TJ (MSMg01no128_j16.g1)
ACCAG336829AG336830
length723738
length of high quality
(start - end)
158 (61 - 218)377 (77 - 453)
definitionCHROMAT_FILE: MSMg01no128_j16.b1 PHD_FILE: MSMg01no128_j16.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:41:45 2005CHROMAT_FILE: MSMg01no128_j16.g1 PHD_FILE: MSMg01no128_j16.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:41:45 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(90,104,520 - 90,104,657)(90,244,595 - 90,244,971)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCCATGT
TCCTTCCATGTTGGTGAAGGAAGAGATTAGCTTTAAAGTTGAAAGGGGTT
GGGTCTGCTCATGTTTCAGGGAAGACCTGTCGTTGGATTGTTTTGAAGTG
GTTCTCCTTGTTGATCATAACACATGTATATTGCCTTGCATCTTGATCAG
CGAACTGTGCCCCATCCAAGATAGGGTTGGACCTTGTAGTGGCTATTCCT
GGTTGCCAACTTAAGTATATTTGCAATGAACTACAATCCAGAATTGTAAG
GCTCACCAGCGACTCTTATCTGTATACTTGGAGATAGAAGTTTCTGATCT
GGATCTTGCTATGGAGATTTTGAGGCATAATGGCTATGGATTCCAGAAGA
TTAAACCTCTGATTCCAATGTCATCCGGGATTTAAGGTGTGATAAAACAC
ACCTTTAATCTGGTCTACTCCTTTCATCTGGGATCATAGTCGCGTTGCAA
CACACAGTTTTATCTACAATGTGCACTTCTGCTGGAGATAATATTATGCA
CTTGTAACAAGTGAGTCTGGCTCTTGCTTCTTTGTCTGTTTGCTGTGTGA
GACTATTAATTGCTAGATCCTTGCACTTCCCTTCCACTTACTGAACCATT
GCTTGGAATTGGTTTGCACACTGCAATTCCCCTTTAAATTCCTTTACTAT
ATACATTACATCCATAAGTTCTG
CAATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXTGGGAATGGGAAAGATGGAGGCAG
AGAACTGAATTCAAATAGATAGCCTCACTCTTACGTACATGGAGTTCCAC
ATCCAAGTCCTCCCTGCTGCTTCTGTCCTCTTTCCAGAAGCTTCGACGGA
AGTTTGCCACCAACTTCCACACAAAGGTGAGGAGTGCATCATTGTAGGAG
TTCTTGGCGATCTGCAGATTCCGGTACACTAGGGTGCTGAAGTGGGTGGA
GAAGAGCTCTGCGAGGACTTCATTGGTGAGAAACTTCTGTAGATTCAGGC
CATTCTCCAGAAAGAGGCGGACAAACTTGGGTCTGTCCTTTATGAGAGCC
GTGAACATGACCTCCCCACCCTCGGCAGACTATTGAGACAGAGGAGAGGA
GAGCTCATACCACAAGGCCAACGAAGAAAACACTAATTCTCTGCATTCCG
GCCACAACATCCTATCATCTTCAGCGTCTCTCTTTATCCTGCTTTGACAA
TAGAACTCATATTTTCAGCATCTAGACGGGACAGCAGCAGAGTGGAGCCT
TTGAATGTGAGAACGTACTTTGAATACAAAGGTACTTATGTGGTGACAGC
ACGCCCACTTTATCATGACATGGGTCCGGAACCAACTTTGCGCATAAAGG
GCCTCCGTTAGCAAAAGCCCCCAGTGTCAGTCTACTGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no128_j16.b1 MSMg01no128_j16.b1 CHROMAT_FILE:
MSMg01no128_j16.b1 PHD_FILE: MSMg01no128_j16.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:41:45 2005
         (158 letters)



>mm_chr1_90104300_90104857
          Length = 558

 Score =  213 bits (110), Expect = 5e-60
 Identities = 131/138 (94%)
 Strand = Plus / Plus

                                                                       
Query: 21  ctttaaagttgaaaggggttgggtctgctcatgtttcagggaagacctgtcgttggattg 80
           ||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||
Sbjct: 221 ctttaaagttgaaaggggttgggtctgctcatgtttcagggaagacctgtcattggattg 280

                                                                       
Query: 81  ttttgaagtggttctccttgttgatcataacacatgtatattgccttgcatcttgatcag 140
           |||||||||||||||||||||||||||||| | ||||| |||||||||||||||||||||
Sbjct: 281 ttttgaagtggttctccttgttgatcataagagatgtagattgccttgcatcttgatcag 340

                             
Query: 141 cgaactgtgccccatcca 158
            ||||||||  |||||||
Sbjct: 341 tgaactgtgttccatcca 358


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: 4
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: 158
Length of database: 558
Length adjustment: 8
Effective length of query: 150
Effective length of database: 550
Effective search space:    82500
Effective search space used:    82500
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)
Query= MSMg01no128_j16.g1 MSMg01no128_j16.g1 CHROMAT_FILE:
MSMg01no128_j16.g1 PHD_FILE: MSMg01no128_j16.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:41:45 2005
         (377 letters)



>mm_chr1_90244395_90245171
          Length = 777

 Score =  636 bits (329), Expect = 0.0
 Identities = 365/377 (96%)
 Strand = Plus / Minus

                                                                       
Query: 1   tgggaatgggaaagatggaggcagagaactgaattcaaatagatagcctcactcttacgt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 577 tgggaatgggaaagatggaggcagagaactgaattcaaatagatagcctcactcttacgt 518

                                                                       
Query: 61  acatggagttccacatccaagtcctccctgctgcttctgtcctctttccagaagcttcga 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 517 acatggagttccacatccaagtcctccctgctgcttctgtcctctttccagaagcttcga 458

                                                                       
Query: 121 cggaagtttgccaccaacttccacacaaaggtgaggagtgcatcattgtaggagttcttg 180
           ||||||||||||||||||||||| ||||||||||||||||| ||||||||||||||||||
Sbjct: 457 cggaagtttgccaccaacttccagacaaaggtgaggagtgcgtcattgtaggagttcttg 398

                                                                       
Query: 181 gcgatctgcagattccggtacactagggtgctgaagtgggtggagaagagctctgcgagg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 397 gcgatctgcagattccggtacactagggtgctgaagtgggtggagaagagctctgtgagg 338

                                                                       
Query: 241 acttcattggtgagaaacttctgtagattcaggccattctccagaaagaggcggacaaac 300
           ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 337 acttcattggtgagaaacttctgcagattcaggccattctccagaaagaggcggacaaac 278

                                                                       
Query: 301 ttgggtctgtcctttatgagagccgtgaacatgacctccccaccctcggcagactattga 360
           |||||||||||||||||||||||||||||||||||||||  |   |||||||||||  ||
Sbjct: 277 ttgggtctgtcctttatgagagccgtgaacatgacctcctgaaggtcggcagactaaaga 218

                            
Query: 361 gacagaggagaggagag 377
           |||||| ||||||||||
Sbjct: 217 gacagaagagaggagag 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: 17
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2
Number of HSP's successfully gapped: 1
Length of query: 377
Length of database: 777
Length adjustment: 9
Effective length of query: 368
Effective length of database: 768
Effective search space:   282624
Effective search space used:   282624
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)