BAC Information

Click to search

BAC

Clone NameMSMg01-333F02
Chromosome3 (Build37)
Map Location 100,930,414 - 101,117,014
singlet/doubletdoublet
Overlap geneLOC668578, LOC668583, LOC669017, Cd2, LOC100043490
Upstream geneSpag17, Wdr3, Gdap2, LOC195514, 4930431B09Rik, OTTMUSG00000007026, Man1a2, Vtcn1, Trim45, Ttf2, Igsf2, Ptgfrn
Downstream geneIgsf3, LOC100043032, Atp1a1, LOC100043036, BC037703, Slc22a15, Nhlh2, LOC100043047, Casq2, Vangl1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-333F02.T7 (MSMg01no333_f02.b1)MSMg01-333F02.TJ (MSMg01no333_f02.g1)
ACCAG449105AG449106
length725807
length of high quality
(start - end)		344 (73 - 416)272 (74 - 345)
definitionCHROMAT_FILE: MSMg01no333_f02.b1 PHD_FILE: MSMg01no333_f02.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:20:28 2005CHROMAT_FILE: MSMg01no333_f02.g1 PHD_FILE: MSMg01no333_f02.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:20:28 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(100,930,414 - 100,930,757)(101,116,743 - 101,117,014)
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTGCGTAGCGCGGCGGAA
TTCTCAAGACTTACCAAAAATCTAGCACTAACTCCTCTAGTATGGGTCGC
ATCTCCCTGCTACTGGCGTATGTGATGCCTCTTGGTTGCTAAACATTACA
ACTGTTACTGCAGAGTATCTGAACTTTGCTGTCTGTCTTTAGAGGGTCAG
GGCTGTTGAGTGGATGGCTGAGTGGCCTGCAGGTCATCTTTCAGATCCTC
TCTAGGACTGTGTGCTGAGTGTTGTTAAGAATGCTAGGCTTCTCTGTAGG
GTTAACTGATGCTTTCTCTGAAGATGTGACCCTTCCGGGCCCTTAGAGAA
GGCTCGGCTTTCCTTTTTACCTGAATGAAACAAAAATAATTCTCTTTCCT
TCATGAACAGAGAGATGCCCCACGCACTGTTCTCCATGAGACGTTCTGAT
TTCCTATCCTGTGTGGTTTCAGCTGGAGGTGGTACAACTTCCTATTCAGC
CAAATACTCCAGCCTTCCCTTTATGCATAGTCCTTGGATTTCTCTTTCTG
GGAAACATTTTTCCATCTCCCCGGTCCATAGCAGAACAGGCAAAAACACA
CTGCAAACTGAGCAAGAAGGGGCTTACCCTCCCCCTACACCCCTAGCAGC
CTGCAAAGGAAAGAACTGGGTATAAAACCTCTCAGAACTCANCNACANTG
CTCCCCTGGGGAGTTCGCGGCGGTG

ATTGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXCTTCCATCCCTTTGCAGGGTGGAGCTG
ATGGTTTAACTAGGCAAAGCAATGGAAATAAGAGGAAGAGATGGTAGATG
AAGGGGTTGGTCCTCGCCTTTCCTTTCTGACAAGGAATGGGAGTCCGCCA
ACGTCATCGTCTAGAAGTTTCTTTTATATTGAAAATACCCAAATGTGGTC
ACTGGTGTGCACCTAGAGTGACCAAAGAATGAAATGATTCCTCTTTCTCT
TCCTCCTCCTCTTCCCTTTCTCTTCCTTTTTCTTCCTCCTCTTCCCCCTC
CCTCTTATACTTACTCCCCCTTCTTCCTTTCTAAAAAGGGGTCCTTTTTT
GACTCTTCATTCTTCGAACGCCCCCCATTTTTATTTTTAGGGGGCTGTGA
ATTTCAAAAACCCCCTACCTCCTGGGTAGTTTTCCGGGTCCCACAATACC
CCCCTGGAATAAAATCCTCTTTCTTTTTTTGTATATCCTTTTATTTCATT
CTCTCATCAATCCCGCGTGGTGTGGTTTTAATAAGTTGGGAGCTTATTGA
TTGTGTTCCGGTTTCAAAGGTTTGGGCTGTATAAACATTGCAGTCTTAAG
GAGTTAAGCCCTTAATAACTTGTGTCTACTATACCCGGTTTTGCCCATTT
TACTCTATGTATCAATGCTAAACTTTCCGGAAAGGGTCTCCGGGACCCTT
TGGCCTCTCCTTAGTCGGCAGGCTGCCCTCTGTTGTCCTCTTTCTCTTAC
ACAACTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no333_f02.b1 MSMg01no333_f02.b1 CHROMAT_FILE:
MSMg01no333_f02.b1 PHD_FILE: MSMg01no333_f02.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:20:28 2005
         (344 letters)



>mm_chr3_100930214_100930957
          Length = 744

 Score =  650 bits (336), Expect = 0.0
 Identities = 342/344 (99%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  tggttgctaaacattacaactgttactgcagagtatctgaactttgctgtctgtctttag 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 tggttgctaaacattacaactgttactgcagagtatctgaactttgctgtctgtctttag 320

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

                                                                       
Query: 181 taggactgtgtgctgagtgttgttaagaatgctaggcttctctgtagggttaactgatgc 240
           |||||||||||||||||||||||| |||| ||||||||||||||||||||||||||||||
Sbjct: 381 taggactgtgtgctgagtgttgttgagaaagctaggcttctctgtagggttaactgatgc 440

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

                                                       
Query: 301 gaatgaaacaaaaataattctctttccttcatgaacagagagat 344
           ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 gaatgaaacaaaaataattctctttccttcatgaacagagagat 544


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: 344
Length of database: 744
Length adjustment: 9
Effective length of query: 335
Effective length of database: 735
Effective search space:   246225
Effective search space used:   246225
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= MSMg01no333_f02.g1 MSMg01no333_f02.g1 CHROMAT_FILE:
MSMg01no333_f02.g1 PHD_FILE: MSMg01no333_f02.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:20:28 2005
         (272 letters)



>mm_chr3_101116600_101117271
          Length = 672

 Score =  487 bits (252), Expect = e-142
 Identities = 267/272 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   cttccatccctttgcagggtggagctgatggtttaactaggcaaagcaatggaaataaga 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 415 cttccatccctttgcagggtggagctgatggtttaactaggcaaagcaatggaaataaga 356

                                                                       
Query: 61  ggaagagatggtagatgaaggggttggtcctcgcctttcctttctgacaaggaatgggag 120
           ||||||||||||||||||| |||||||| || ||||||||||||||||||||||||||||
Sbjct: 355 ggaagagatggtagatgaaagggttggttcttgcctttcctttctgacaaggaatgggag 296

                                                                       
Query: 121 tccgccaacgtcatcgtctagaagtttcttttatattgaaaatacccaaatgtggtcact 180
           ||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 295 tccgccaacgtcatcgtctagaagtttcttttatattgaaaatacccaagtgtggtcact 236

                                                                       
Query: 181 ggtgtgcacctagagtgaccaaagaatgaaatgattcctctttctcttcctcctcctctt 240
           || |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 235 ggcgtgcacctagagtgaccaaagaatgaaatgattcctctttctcttcctcctcctctt 176

                                           
Query: 241 ccctttctcttcctttttcttcctcctcttcc 272
           ||||||||||||||||||||||||||||||||
Sbjct: 175 ccctttctcttcctttttcttcctcctcttcc 144


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: 14
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: 272
Length of database: 672
Length adjustment: 9
Effective length of query: 263
Effective length of database: 663
Effective search space:   174369
Effective search space used:   174369
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)


| Home | SequenceCutter | Blast | Download |