BAC Information

Click to search

BAC

Clone NameMSMg01-542M20
Chromosome17 (Build37)
Map Location 3,427,401 - 3,566,324
singlet/doubletdoublet
Overlap geneTiam2, LOC630810, Tfb1m, Cldn20, 1700102H20Rik
Upstream geneLOC383196, LOC100040029, LOC432993, D030013I16Rik, LOC100040128, 1700024P12Rik, LOC435499, LOC224487, Rbm16, LOC665812, LOC621579, LOC624144
Downstream geneNox3, 4930470H14Rik
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-542M20.T7 (MSMg01no542_m20.b1)MSMg01-542M20.TJ (MSMg01no542_m20.g1)
ACCAG608489AG608490
length766756
length of high quality
(start - end)		633 (51 - 683)675 (78 - 752)
definitionCHROMAT_FILE: MSMg01no542_m20.b1 PHD_FILE: MSMg01no542_m20.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:22:57 2005CHROMAT_FILE: MSMg01no542_m20.g1 PHD_FILE: MSMg01no542_m20.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:22:57 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(3,566,010 - 3,566,324)(3,427,401 - 3,428,062)
sequence
NNNAACCTTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
CGCGGAATTCTTTTGACAAATGGAGATTCCCTACAGATACTTAAAAGAAC
AGCCAAGTTACACTCATTTGCAAGAATTTACCAAGGCCTAAAAAATAGGG
GGGTTGTGGTATTGCCTTATTCATGAGAAGGTCTGCTAGAGCAGAACCCC
CTGGTGCTAGCCCAAAGGAACAGCATAATCAGGTATTTACTAAGAACCCC
TGGTGGTGGGTTTAACAATAGACAACCCTGGGCTCCATTCTAAGTGGTAA
ATGAGGCCAGGTCCCCACCATCTTTTGATGTATGCATTCCTTTTGTTTTG
TGTCACTGTAACTCAGTGGATGTGTCCGCCTGGCTTTTCTTGTTTTTTCT
TCTGTATAAAAAAGTCCGGTTTTCATTTGGACATTACATTCAGATTCAAT
ACACTTTCTCATGTCGCGTCAGTTTGTCACCCCATTCCTGCCGACTCTAT
GCCCATCTGTCCAGAGACTCCCATTCACGCGGATTGAGGAGGGCCCACTG
AGCCCGGTCCATGGCAGTCCATTACGTGCATTATCTTAGAAGTCAAACAA
AATGTGCAAGGCATGCTTTGTAAAGCTGCAAGGTATCCATCACCCTGTTC
ACATCACAGTTAAAGAAACTACATCCGTTTTCCATGGCTGCTGCATCATA
TTATGACAAACCTAGTAACTCTAAACAGCATGAATATATTGTCTCATGAT
TCTAGAGTTGAGCAGT

TTCTCCATGCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXAATGGATGCTCCATTAAGCTTTG
GGATTAGGGTGTGGGCAGGAGACTAGGGCTGTTCATACTCATCAGTGCAA
GGATCATGGCTGTCTATAACAGGCATTTGTCTGGTGAAGTCTAAAGCTAC
TGCCTTTCCTATCCATGCCAGGACAAAGAAAATATTGTGATCTGTGCTCT
GCATAACACATGACCTAGAGAGAGGGTAATGTCTGAGAGTTCCAGAACAG
AGATCTGTTAAAGAAAGTCCATGGCCAGGGAAGATTCAGCTGTTCCCAGG
CATCCCTAGTGAATGTCAAAGAAACTTCTCAGGTTCACTAGAGCCTCCTG
GACAAGTGGGAAAGTGGTGGCTGCCTTTGGATAGTAAGACCCAGGATATC
TGCCATTAGGATGTCCAGCAATTTGATAGAAATGCCTGGCATGGTGTTGA
GTCTGGAAGACTAATTGACTTCTGCTACCGTTGCTCAGCACCTGTGTCTT
CTTGGAATACTTAGCCAACTTCTTGACACTTTGGACTTTGAACAAGAAGA
TTTGTAAGGGTGCACAGAAGCCAGGCATGGGGTAACTCACATATGTAATC
CTAGCCCTTGGGAGGCTGAGGCAGGAGGATTTCTGTGAGCACTAGGCTAC
ATAGTGAGTTCCAGCATAACCTGATCTATACAGAGAGACTCTATGCTGAA
AAACTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no542_m20.b1 MSMg01no542_m20.b1 CHROMAT_FILE:
MSMg01no542_m20.b1 PHD_FILE: MSMg01no542_m20.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:22:57 2005
         (633 letters)



>mm_chr17_3565292_3566324
          Length = 1033

 Score =  563 bits (291), Expect = e-164
 Identities = 309/315 (98%)
 Strand = Plus / Minus

                                                                        
Query: 319  gatgtgtccgcctggcttttcttgttttttcttctgtataaaaaagtccggttttcattt 378
            ||||||||| |||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 1033 gatgtgtccacctggcttttcttgttttttcttctgtataaaaaagtctggttttcattt 974

                                                                        
Query: 379  ggacattacattcagattcaatacactttctcatgtcgcgtcagtttgtcaccccattcc 438
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 973  ggacattacattcagattcaatacactttctcatgtcgcgtcagtttgtcaccccattcc 914

                                                                        
Query: 439  tgccgactctatgcccatctgtccagagactcccattcacgcggattgaggagggcccac 498
            ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct: 913  tgccgactctatgcccatctgtccagagactccgattcacgcggattgaggagggcccac 854

                                                                        
Query: 499  tgagcccggtccatggcagtccattacgtgcattatcttagaagtcaaacaaaatgtgca 558
            ||||||||||||||||||| |||||||||||||||||||||||||||||||||||| |||
Sbjct: 853  tgagcccggtccatggcaggccattacgtgcattatcttagaagtcaaacaaaatgcgca 794

                                                                        
Query: 559  aggcatgctttgtaaagctgcaaggtatccatcaccctgttcacatcacagttaaagaaa 618
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 793  aggcatgctttgtaaagctgcaaggtatccatcaccctgttcacatcacagttaaagaaa 734

                           
Query: 619  ctacatccgttttcc 633
            |||||||| ||||||
Sbjct: 733  ctacatccattttcc 719


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: 15
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: 633
Length of database: 1033
Length adjustment: 10
Effective length of query: 623
Effective length of database: 1023
Effective search space:   637329
Effective search space used:   637329
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= MSMg01no542_m20.g1 MSMg01no542_m20.g1 CHROMAT_FILE:
MSMg01no542_m20.g1 PHD_FILE: MSMg01no542_m20.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:22:57 2005
         (675 letters)



>mm_chr17_3427201_3428277
          Length = 1077

 Score = 1139 bits (589), Expect = 0.0
 Identities = 648/677 (95%), Gaps = 17/677 (2%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  ctcatcagtgcaaggatcatggc--tgtctataacaggcatttgtctggtgaagtctaaa 118
           |||| ||||||||||||||||||  |||||||||||||||||||||||||||||||||||
Sbjct: 261 ctcaccagtgcaaggatcatggctgtgtctataacaggcatttgtctggtgaagtctaaa 320

                                                                       
Query: 119 gctactgcctttcctatccatgccaggacaaagaaaatattgtgatctgtgctctgcata 178
           |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 gctactgcctttcctacccatgccaggacaaagaaaatattgtgatctgtgctctgcata 380

                                                                       
Query: 179 acacatgacctagagagagggtaatgtctgagagttccagaacagagatctgttaaagaa 238
           ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 acacatgacttagagagagggtaatgtctgagagttccagaacagagatctgttaaagaa 440

                                                                       
Query: 239 agtccatggccagggaagattcagctgttcccaggcatccctagtgaatgtcaaagaaac 298
           || |||||||         |||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 agcccatggc--------tttcagctgttcccaggcatccctagtgaatgtcaaagaaac 492

                                                                       
Query: 299 ttctcaggttcactagagcctcctggacaagtgggaaagtggtggctgcctttggatagt 358
           |||||||||||||||||||||||||||||||||||||||       ||||||||||||||
Sbjct: 493 ttctcaggttcactagagcctcctggacaagtgggaaag-------tgcctttggatagt 545

                                                                       
Query: 359 aagacccaggatatctgccattaggatgtccagcaatttgatagaaatgcctggcatggt 418
            | |||||||||||||||| ||||||||||||||||||| ||||||||||||||||||||
Sbjct: 546 gatacccaggatatctgccgttaggatgtccagcaatttcatagaaatgcctggcatggt 605

                                                                       
Query: 419 gttgagtctggaagactaattgacttctgctaccgttgctcagcacctgtgtcttcttgg 478
           ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 606 gttgagtctggaagactaattgacttctgctaccgttgctcaggacctgtgtcttcttgg 665

                                                                       
Query: 479 aatacttagccaacttcttgacactttggactttgaacaagaagatttgtaagggtgcac 538
           |||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 666 aatacttagccaacttcttgacactttggactttgaacaagaagatttataagggtgcac 725

                                                                       
Query: 539 agaagccaggcatggggtaactcacatatgtaatcctagcccttgggaggctgaggcagg 598
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 726 agaagccaggcatggggtaactcacatatgtaatcctagcccttgggaggctgaggcagg 785

                                                                       
Query: 599 aggatttctgtgagcactaggctacatagtgagttccagcataacctgatctatacagag 658
           |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 786 aggatttctgtgagcactaggctacatagtgagttccagcataatctgatctatacagag 845

                            
Query: 659 agactctatgctgaaaa 675
           |||||||||||||||||
Sbjct: 846 agactctatgctgaaaa 862


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: 33
Number of extensions: 4
Number of successful extensions: 4
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2
Number of HSP's successfully gapped: 1
Length of query: 675
Length of database: 1077
Length adjustment: 10
Effective length of query: 665
Effective length of database: 1067
Effective search space:   709555
Effective search space used:   709555
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 |