BAC Information

Click to search

BAC

Clone NameMSMg01-477A04
Chromosome3 (Build37)
Map Location 19,477,018 - 19,477,655
singlet/doubletsinglet
Overlap geneDnajc5b
Upstream geneArmc1, Mtfr1, Pde7a
Downstream geneEG620290, Trim55, Crh, LOC665002, LOC100039304, LOC100040237, 4632415L05Rik, Cp, Hps3, Hltf, Gyg, Cpa3, EG664965, LOC100040283, Cpb1, Agtr1b
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-477A04.T7 (MSMg01no477_a04.b1)MSMg01-477A04.TJ (MSMg01no477_a04.g1)
ACCAG558465AG558466
length712739
length of high quality
(start - end)
646 (67 - 712)660 (80 - 739)
definitionCHROMAT_FILE: MSMg01no477_a04.b1 PHD_FILE: MSMg01no477_a04.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:56:19 2005CHROMAT_FILE: MSMg01no477_a04.g1 PHD_FILE: MSMg01no477_a04.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:56:19 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
CGGTTTTGTTTTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXTGATACCCACCCCTCGCCTCCTCTTCTTCTCAAG
GTGTCACTACTCATTCTGGCTCCAGGAATGAGGATGGAGTCTCAGGATGG
CTTGCAGTGGAGGACCTTTGGTTACACACACTTACGGTCTCTTTGCATGT
CGTATGTCGTTATGATTTCGTCATTTTAGGGAAAATTTAAACCCCCAACT
TGCCTCTAAGACTCCCCTGTGAGCATTTCCCAGCCATGGCCCTCTACGAC
CCCAGTTGTTTTTCACCTATATTTTTCCTCTTTCTTTGAACTGTGCAACT
GCCATAAGTTTTCTGAAAATCTCCTTTTCATCCCCATCCTGTTTCTTTCT
CCAGGGAAATCCCTTTTTTGGGAAAGTCTTACTTCATCCCTTACCATATG
TGATATACAATATATATTAGTAACTATTAGTTCCAAGCTGGTACTTTTTA
ATGATACATTGTTTCATTTATATGGAACATATTTAATGCCACTTAGGTAA
GCACTATGCAGTTGAGCTTTGGTACAGCAGAAAAGGAAAGTATACTTCTT
TGTAAGGAGCCATGCCTGGCATGCCTCTGTGTTGTATCTTTTTTTGCTAC
TGCATGATTGAAGCTTATCTATAGAAATTTTGATCAGTTTCTTTACCTTC
CTGAACAACAAA
NNNCCCCGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXTCATTCATGTTCCTACCAGAA
AAAGTGTATGAATACACTTTTTTTCTCTCTTTTTTTTCTTAATTTTTTAT
TATTTAAATTTATTTTATATATCAAACATATTAATAATATTGAGTATTTT
GAGAATCAAATAATACATAAAAATTTTGTTCAACTTTTATATTTTTATCT
TTTTCATACCCTAAAAATATCATTAATGAACATTTAATACTATCCATGTC
TGAGGCTCCTATATCTAAGATTGTATACTAAATTGCTTCAAAACACACAA
AATATTCTTTGGGAATTAAGCATAGTAAAAGAGCATAAGATATTAAAAAT
GAATCATTAAGAAATATATTCAAAAGCCTTTATATGATACCACTTGACAT
AGTGAGAGAGTATTTAAAATGCATTATATATCCCTGTACATTGTATAACT
ATAAGTTTACTTAATAAAAGATTATCAGTGTTTCTAGGAGAGAAATTATT
TTATCAGTAAGTATATATTAAAAATTTCAAAATAGCAAAAACTCTTTGAA
GTTAAACATTAAGAAAAATGCTAATCTCAAATACAGTGAGGAAAATTATC
AATAATATTTCCATAATGTTTGTAGAACATGATTTTAATATTTTCAAACA
GAATAATTATTTTAAGATATATTTTGTTATGTCTCCCTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no477_a04.b1 MSMg01no477_a04.b1 CHROMAT_FILE:
MSMg01no477_a04.b1 PHD_FILE: MSMg01no477_a04.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:56:19 2005
         (646 letters)



>mm_chr3_19477018_19478066
          Length = 1049

 Score = 1071 bits (554), Expect = 0.0
 Identities = 610/638 (95%), Gaps = 16/638 (2%)
 Strand = Plus / Minus

                                                                       
Query: 5   acccacccctcgcctcctcttcttctcaaggtgtcactactcattctggctccaggaatg 64
           |||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||
Sbjct: 638 acccacccctcgcctcctctccttctcaaggtgtcactactcattctggctccaggaatg 579

                                                                       
Query: 65  aggatggagtctcaggatggcttgcagtggaggacctttggttacacacacttacggtct 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 578 aggatggagtctcaggatggcttgcagtggaggacctttggttacacacacttacggtct 519

                                                                       
Query: 125 ctttgca---tgtcgtatgtcgttatgatttcgtcattttagggaaaatttaaaccccca 181
           |||||||   ||| |||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 518 ctttgcatgttgttgtatgtcgttatgatttcatcattttagggaaaatttaaaccccca 459

                                                                       
Query: 182 acttgcctctaagactcccctgtgagcatttcccagccatggccctctacgaccccagtt 241
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 458 acttgcctctaagactcccctgtgagcattccccagccatggccctctacgaccccagtt 399

                                                                       
Query: 242 gtttttcacctatatttttcctctttctttgaactgtgcaactgccataagttttctgaa 301
           ||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 398 gttcttcacctatatttttcctctttctttgaactgtgcaactgccataagttttctgaa 339

                                                                       
Query: 302 aatctccttttcatccccatcctgtttctttctccagggaaatcccttttttgggaaagt 361
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 338 aatctccttttcatccccatcctgtttctttctccagggaaatcccttttttgggaaagt 279

                                                                       
Query: 362 cttacttcatcccttaccatatgtgatatacaatatatattagtaactattagttccaag 421
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 278 cttacttcatcccttaccatatgtgatatacaatatatattagtaactattagttccaag 219

                                                                       
Query: 422 ctg-------------gtactttttaatgatacattgtttcatttatatggaacatattt 468
           |||             |||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 218 ctggtactttttaaaagtactttttaatgatatattgtttcatttatatggaacatattt 159

                                                                       
Query: 469 aatgccacttaggtaagcactatgcagttgagctttggtacagcagaaaaggaaagtata 528
           ||||||||| |||||||  |||||||||||||||||||||||| ||||||||||||||||
Sbjct: 158 aatgccactcaggtaagtgctatgcagttgagctttggtacagaagaaaaggaaagtata 99

                                                                       
Query: 529 cttctttgtaaggagccatgcctggcatgcctctgtgttgtatctttttttgctactgca 588
           ||||||||||||||||| ||||||||||| ||||||||||||||||||||||||||||||
Sbjct: 98  cttctttgtaaggagccgtgcctggcatggctctgtgttgtatctttttttgctactgca 39

                                                 
Query: 589 tgattgaagcttatctatagaaattttgatcagtttct 626
           ||||||||||||||||||||||||||||||||||||||
Sbjct: 38  tgattgaagcttatctatagaaattttgatcagtttct 1


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: 28
Number of extensions: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 646
Length of database: 1049
Length adjustment: 10
Effective length of query: 636
Effective length of database: 1039
Effective search space:   660804
Effective search space used:   660804
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)