BAC Information

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BAC

Clone NameMSMg01-110D19
Chromosome4 (Build37)
Map Location 129,293,728 - 129,422,899
singlet/doubletdoublet
Overlap geneIqcc, Ccdc28b, Txlna, Kpna6, Tmem39b, Khdrbs1
Upstream geneTlr12, Phc2, A3galt2, BC039093, LOC667354, Trim62, Adc, Ak2, Ibrdc3, Tmem54, Hpca, Fndc5, S100pbp, Yars, C77080, Sync, Rbbp4, Zbtb8os, 2410081M15Rik, LOC100039588, Zbtb8, Bsdc1, Tssk3, 1700125D06Rik, Marcksl1, Hdac1, Lck, BC030183, Eif3s2, 2510006D16Rik, LOC667452
Downstream geneLOC100040532, Ptp4a2, LOC622469, LOC622480, 1700003M07Rik, Bai2, Col16a1, Pef1, Hcrtr1, Tinagl, Gm853, Serinc2, Fabp3, Zcchc17, Wdr57, 2610200G18Rik, Pum1, LOC622577, Sdc3
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-110D19.T7 (MSMg01no110_d19.b1)MSMg01-110D19.TJ (MSMg01no110_d19.g1)
ACCAG323215AG323216
length705672
length of high quality
(start - end)		580 (60 - 639)508 (74 - 581)
definitionCHROMAT_FILE: MSMg01no110_d19.b1 PHD_FILE: MSMg01no110_d19.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:13:45 2005CHROMAT_FILE: MSMg01no110_d19.g1 PHD_FILE: MSMg01no110_d19.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:13:45 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(129,422,561 - 129,422,899)(129,293,728 - 129,294,235)
sequence
NCCCCATCATNCNAATCTATAAXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXCGCGGAATTCTTTCTTTTTCTTTTTAAATTTATTTTATTTA
TATGAGTACACTGTAGCTGGGAATTGAACTCAGGACTCTGCTCGCTCCAG
CCTAAAAATTTATGATTATGTGTAAGTACACTGTAGCTGTCTTTAGACAC
ACCAGGAGAGGGTGTCAGATCTCATTACCAATGTTTGTGAGCCACCATGT
AGTTACTGGGATTTGAACTCAGGACTTTCGGAAGAGCAGTCGGTGCTCTT
AACTGCTGAGCCAGTTCTCCAGCCCCACTAGTGAATTCTTTTTTGTTTGT
TTGTTTTTGTTTTTCGAGACAGGGTTTCTCTGTTTAGCTCTGGCTGTCCT
GGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCTGCCTGC
CTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGTGCCACCATGCCCGGCT
CACTAGTGAGTTCTTATTGAAAGCCCTGTCTTTGGGCAGATAAGGGAAAT
TCAGAAAACTTTAACCTGATTGCCTATTGGTAATGAATACATCAAGGCTA
GATATTGTGGGATGGCCTTTTTGCAATTCTTTCTTTGGCTAGCTTTGATA
AGTGATTCTAGCACAAAATGCTAGACACAAGTAGTTAGGCGACTAGAAAA
GATAA

CGATGCAGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXCACGGTTTTTCCATCCTTCTGGACTAA
GCTCACTGGTATTTCCATGGCCCGAAGAGCCAGCACTCGGGGATTGGCTC
TTGGGTGGTTTAGTCCTAATGAGATCCAGGCTACCTTGTTCCTGCCCTGC
CAAGGTCTCATCCCAAATCATGTGGCCTTCTAAGATATTCAAATCACAGG
GCCCAGCGCTTCGGCTTGGCTTTCTGGAATATCTGTCCTCAATATTTTGA
TTTTCAGAGAGAGTGGGCAGCTGTGTTTCAGCCTTTCTAGAACAAGGACT
CCTAAACTTGAGGTCCCCAGGGATCTGATCCTCTAGGACTTTCAACTGCT
GTAGGGAGGTTTCCTTAAAGGGCTGTCCTCCGTGGTCTGGCCCTTTGGTG
ACCCTGTCCCCTCCAGCCTGGCTCTCTAATGCTGCAGGCAGCTGTGATGC
AGAGTTCCTATAGCAGAGCTCCCTGCCTTTAGACCCAGCAGTGGTTTTAC
CTGCACTGGTCACACTGTCTGGGTGTTTCTGGGGCTTCAATCTGCCCTTG
TGGCTGGAGTCCTCTGCATGATGGGATTCTCCTATGATCCTGTCTCTATA
GGATTGGTTGTCCCGAACGCAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no110_d19.b1 MSMg01no110_d19.b1 CHROMAT_FILE:
MSMg01no110_d19.b1 PHD_FILE: MSMg01no110_d19.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:13:45 2005
         (580 letters)



>mm_chr4_129421920_129422899
          Length = 980

 Score =  632 bits (327), Expect = 0.0
 Identities = 336/339 (99%)
 Strand = Plus / Minus

                                                                       
Query: 242 aactgctgagccagttctccagccccactagtgaattcttttttgtttgtttgtttttgt 301
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 980 aactgctgagccagttctccagccccactagtgaattcttttttgtttgtttgtttttgt 921

                                                                       
Query: 302 ttttcgagacagggtttctctgtttagctctggctgtcctggaactcactctgtagacca 361
           ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 920 ttttcgagacagggtttctctgtgtagctctggctgtcctggaactcactctgtagacca 861

                                                                       
Query: 362 ggctggcctcgaactcagaaatctgcctgcctctgcctcccaagtgctgggattaaaggc 421
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 860 ggctggcctcgaactcagaaatctgcctgcctctgcctcccaagtgctgggattaaaggc 801

                                                                       
Query: 422 gtgtgccaccatgcccggctcactagtgagttcttattgaaagccctgtctttgggcaga 481
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 800 gtgtgccaccatgcccggctcactagtgagttcttattgaaagccctgtctttgggcaga 741

                                                                       
Query: 482 taagggaaattcagaaaactttaacctgattgcctattggtaatgaatacatcaaggcta 541
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct: 740 taagggaaattcagaaaactttaacctgattgcctattggtaatgaatacatcaaggcga 681

                                                  
Query: 542 gatattgtgggatggcctttttgcaattctttctttggc 580
           ||||||| |||||||||||||||||||||||||||||||
Sbjct: 680 gatattgggggatggcctttttgcaattctttctttggc 642


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: 580
Length of database: 980
Length adjustment: 10
Effective length of query: 570
Effective length of database: 970
Effective search space:   552900
Effective search space used:   552900
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= MSMg01no110_d19.g1 MSMg01no110_d19.g1 CHROMAT_FILE:
MSMg01no110_d19.g1 PHD_FILE: MSMg01no110_d19.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:13:45 2005
         (508 letters)



>mm_chr4_129293528_129294435
          Length = 908

 Score =  975 bits (504), Expect = 0.0
 Identities = 507/508 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   cacggtttttccatccttctggactaagctcactggtatttccatggcccgaagagccag 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 cacggtttttccatccttctggactaagctcactggtatttccatggcccgaagagccag 260

                                                                       
Query: 61  cactcggggattggctcttgggtggtttagtcctaatgagatccaggctaccttgttcct 120
           ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 cactcgggggttggctcttgggtggtttagtcctaatgagatccaggctaccttgttcct 320

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

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

                                                                       
Query: 241 tgggcagctgtgtttcagcctttctagaacaaggactcctaaacttgaggtccccaggga 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 tgggcagctgtgtttcagcctttctagaacaaggactcctaaacttgaggtccccaggga 500

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

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

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

                                       
Query: 481 cactggtcacactgtctgggtgtttctg 508
           ||||||||||||||||||||||||||||
Sbjct: 681 cactggtcacactgtctgggtgtttctg 708


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: 25
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: 508
Length of database: 908
Length adjustment: 10
Effective length of query: 498
Effective length of database: 898
Effective search space:   447204
Effective search space used:   447204
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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