BAC Information

Click to search

BAC

Clone NameMSMg01-496H21
Chromosome1 (Build37)
Map Location 33,611,932 - 33,612,471
singlet/doubletsinglet
Overlap genePrim2
Upstream geneKhdrbs2, EG633498, LOC213711, LOC100040828, EG666108
Downstream gene1700001G17Rik, Rab23, Bag2, Zfp451, OTTMUSG00000022109, B230209C24Rik, Dst, LOC100040913, LOC383629, LOC100040938, Ccdc115, Imp4, Ptpn18, Tesp1, Cfc1, Tesp2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-496H21.T7 (MSMg01no496_h21.b1)MSMg01-496H21.TJ (MSMg01no496_h21.g1)
ACCAG573285AG573286
length787774
length of high quality
(start - end)
560 (49 - 608)526 (78 - 603)
definitionCHROMAT_FILE: MSMg01no496_h21.b1 PHD_FILE: MSMg01no496_h21.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:21:50 2005CHROMAT_FILE: MSMg01no496_h21.g1 PHD_FILE: MSMg01no496_h21.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:21:50 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
NATCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCG
CGGAATTCAAGGCTTGCGAGATCTAGTGCTGGGGAAGAAGTTTTCAAGTT
TAATTCTTCAGGTTCCCCCCCCCCCCCCCCAAGACAGGGTTTCTCTGTGT
AGCTCTGGCTGTCCTGGAGCTCACTTTGTAGACCAGGCTGGCCTCGAACT
CAGAAATCTGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGCG
CCACCACGCCTGGCAATTCTTCAGTTTTAAAATTGGTTTTTAAAGAGAAT
TTGTTTATAAATAGTACTGAGTGGTGAGTATATAGCACATTTTAAAAATT
GTTATTTAAAAGCTATCTTTATAACATTAGATGTCAAACATGTCTCATTA
CCCTTGAAATCGAAAGTGTGTGCATTTAACAGCCATGAATCCTGGGAAGT
ATAGGAGTTTCTCATTCTATAAAAGAAAAAACTAAGGCATATGGAGTTAT
AGTCACTGAAGGTCACTTGAATTTGACAAGTCCAATATCAGTGTACTGGC
TGTTACACTACCTTTGAAAATTTTCCATGTCTTGCCTTTAAATTATAAAG
TACTGTGTGAGTGTGTGTGNNNNAAGGGGAAANNTACCNANNTGAGCCNG
TTNNAAGNNCCTCTGAAATGTACATTTTCTTGACACTTACAACTCCCGAG
AGAGATACTAACACCCCGGACTAATATCATTTTAATTTTACCTAAGAAAT
TTGATTAGATTTTACTTGGAAATTTGAAAGGGAACAA
NNNCCGATGATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXCTAAATTTGTACAAGTAATTTTG
AGTCCTCATTGGCATAAAAGCTGCAGTTAGAGTTCTGTAAACCTTCAGGT
GTCACAAGCTAATTGCACTAGGATGGAAAGCAGATTTGAAACAAATTTAC
AATCAGGGAAAACATTCCTTCTAGGCTAGGTGTGAAACCGTTGCCTGATA
ACTAAAGTTGTAAACTGGGACTGGACTGTGGGTGTAAAGATAGAAAACGA
AATGTTGGCTAGATCTTTCTAGACTAAACTTCAATACTAATGAAACACAG
GCAGATGATTTACCTCTTGACTAAACTGTGTTAACTTATAACATAAGAAT
TATTGTTTTAAACTCTTAATGAACTTATAGAACTACTGACAGATAATAGA
TGCTTATTAGTCTTAATGAAAACTTGTAAACATTCCTGCTGAAATTTCTT
ATTCAATTTATGATGAACTTTTGGAATGTAAAGACATTTGGAAAACCATG
TGATTTATTCTCTGAAAATTCTTTAAGTACTAAGAAGAGGGCTCCTGGCT
GACTTGCCAGACTAAAGAGCTCTAGCAATTTATCCTTTATTTAATTCTCC
ACTTCNTAAAAGCACTTGTTAATTCGTCAGACTTTAGTGCTTGGTTTAGC
ACAGAATAATAAGAGTTAAGTTTTTCAGTGCTTATTCTAGCATGTAGAAT
TAAAAGGGAAAGTCAAGTTTCTAC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no496_h21.b1 MSMg01no496_h21.b1 CHROMAT_FILE:
MSMg01no496_h21.b1 PHD_FILE: MSMg01no496_h21.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:21:50 2005
         (560 letters)



>mm_chr1_33611516_33612475
          Length = 960

 Score =  818 bits (423), Expect = 0.0
 Identities = 507/553 (91%), Gaps = 30/553 (5%)
 Strand = Plus / Minus

                                                                       
Query: 25  ctagtgctggggaagaagttttcaagtttaattcttcag------------gttcccccc 72
           |||||||||||||||||||||||||||||||||||||||             ||      
Sbjct: 956 ctagtgctggggaagaagttttcaagtttaattcttcagttttttttttttttt------ 903

                                                                       
Query: 73  cccccccc-----ccaagacagggtttctctgtgtagctctggctgtcctggagctcact 127
                  |     || ||||||||||||||||||| || |||||||||||||| ||||||
Sbjct: 902 -------ctttttccgagacagggtttctctgtgtcgccctggctgtcctggaactcact 850

                                                                       
Query: 128 ttgtagaccaggctggcctcgaactcagaaatctgcctgcctctgcctcccaagtgctgg 187
            |||||||||||||||||||||||||||||||| | ||||||||||||||||||||||||
Sbjct: 849 ctgtagaccaggctggcctcgaactcagaaatccgactgcctctgcctcccaagtgctgg 790

                                                                       
Query: 188 gattaaaggcgtgcgccaccacgcctggcaattcttcagttttaaaattggtttttaaag 247
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 789 gattaaaggcgtgtgccaccacgcctggcaattcttcagttttaaaattggtttttaaag 730

                                                                       
Query: 248 agaatttgtttataaatagtactgagtggtgagtatatagcacattttaaaaattgttat 307
           ||||||||||||||||||||||||||||||  ||||||||||||||||||||||||||||
Sbjct: 729 agaatttgtttataaatagtactgagtggtttgtatatagcacattttaaaaattgttat 670

                                                                       
Query: 308 ttaaaagctatctttataacattagatgtcaaacatgtctcattacccttgaaatcgaaa 367
           ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 669 ttaaaagctatctttataacattagatgtcaaacatgtctcattacccttgaagtcgaaa 610

                                                                       
Query: 368 gtgtgtgcatttaacagccatgaatcctgggaagtataggagtttctcattctataaaag 427
           ||||||||||||||||||||||||||||| |||||||||||||||||||||||| |||||
Sbjct: 609 gtgtgtgcatttaacagccatgaatcctgtgaagtataggagtttctcattctacaaaag 550

                                                                       
Query: 428 aaaaaactaaggcatatggagttatagtcactgaaggtcacttgaatttgacaagtccaa 487
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 549 aaaaaactaaggcatatggagttatagtcactgaaggtcacttgaatttgacaagtccaa 490

                                                                       
Query: 488 tatcagtgtactggctgttacactacctttgaaaattttccatgtcttgcctttaaatta 547
           |||||||||||||||||||| ||||||||||||| |||||||||||||||||||||||||
Sbjct: 489 tatcagtgtactggctgttatactacctttgaaatttttccatgtcttgcctttaaatta 430

                        
Query: 548 taaagtactgtgt 560
           |||||||||||||
Sbjct: 429 taaagtactgtgt 417


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: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 560
Length of database: 960
Length adjustment: 10
Effective length of query: 550
Effective length of database: 950
Effective search space:   522500
Effective search space used:   522500
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)