BAC Information

Click to search

BAC

Clone NameMSMg01-541H03
Chromosome1 (Build37)
Map Location 139,736,218 - 139,893,113
singlet/doubletdoublet
Overlap geneLOC100043143
Upstream geneNr5a2, Rnu7-ps3, LOC100042567
Downstream genePtprc, LOC100042596, Atp6v1g3, LOC100042600, Nek7, LOC545363, LOC667745, Lhx9, 2310009B15Rik, 1700019P21Rik, LOC100042623, Dennd1b
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-541H03.T7 (MSMg01no541_h03.b1)MSMg01-541H03.TJ (MSMg01no541_h03.g1)
ACCAG607458AG607459
length742732
length of high quality
(start - end)		679 (51 - 729)612 (85 - 696)
definitionCHROMAT_FILE: MSMg01no541_h03.b1 PHD_FILE: MSMg01no541_h03.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:21:06 2005CHROMAT_FILE: MSMg01no541_h03.g1 PHD_FILE: MSMg01no541_h03.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:21:06 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(139,892,439 - 139,893,113)(139,736,218 - 139,736,826)
sequence
CCTAACTTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
CGCGGAATTCTTCAAGGTCAGCTGTTCCTTTGTTCCTGGGTTTATGGTAA
TCTACGACATCATGCAGAGGGAACCAATAGTGAGCCAGGTTGCTTATTTC
AAGGCTGCAAGGAGCCAAAGAGAAGACACAGGGTGTAGTGGGGGATTATG
CTCTTCAAACACATTTATTCAATGACCTAAGTTCTTTCATTAGGCTACTT
CTCCTGAATTTTGCACAACCCTACAGTGCCATAGGTTAGAGACACAGCCT
TTAGGGTGTGTGTGGGGAGTGAGGGGTGTGGCGTGAAGGGAACAAGGGAA
GTCGAAAGGGTCAAGGTACAATACAGGGGGAAAATGTAGCACAAAGTGGA
GTGATAGTAATCTGGGATATGCCTGCTGCTTATGCCACATGGTATGTATG
TGTGCTGCCTCTTTCCTTAGAGTTCCTCAGTGATGAATGTTTTCCCTTCG
TGTCTCACATGGCTTGCTTTGGTGACACTGTCATAGGAATGGTGAGCAAG
CATGTGAAGACTTGACTCTCAGGCACTGAATTACTGCTTAGGTTCTCTAT
TGTCCCTTTTTGTCGTTGACACTGTCTTATGTAAGCACTGGCTCTGGGTC
TGCATGATGACGATCACAAAAATAATGGGTTCATTTTCAAAAACTCATGA
CCATTCATTCTGTGAGGAGGACACTCACATATCCATACATCA

TTAATCCACGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCTTTGAGGATAAACTT
TATAAGACACAAAAACATGCATCACGTGGAGGAAAAGAGCAGAATATGAT
TCTGTGTAAATACCACCCCCATACATTGCGTCCTTAAAGCTGGCTTTGTT
CTTTCCAGATGTCACTGTCCTCCTTAACTTTTTCTCTTTGTATGAAATGA
GTGTAGTTAAATTATGAATACTTTGCTCTCTCCAGGGCTACAGGGAAAGT
GGGACGACAATTATTTCCAGTGAATCGAACCCCTCTTCCACTCCAGGATG
AGTTTGCCAAAGCTGTTCAATAGGAGAACGTCAGCCAACAAAACATTAGT
TATGTAAACACCCCCTTCATACACCCAATAAATTAATAAAAAATACACAA
AATAGAGGCCATACTCCAAACCTTTCCCCCTTATACGTTGGCTTCAAACC
TTCATTTGTTTGGGAGAAGCACTTCATTGAATTGTGGAAGTTTTTAGAAT
ATCTATTGTATTTTAGAGAAAGAAGGACAAGGAAAAGAATATCCTGTGAT
CAAAACAACACTCCTACCTATCTTTAAAAGATAAAGCTGCTGGATGTTGG
TGGCGCTCACCTTTAATCCCAGCACTTGGGAGTCAGAGGCAGGAAGATTT
CTGAGTTCGAGGCCAGCCTGGTCTACAAATTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no541_h03.b1 MSMg01no541_h03.b1 CHROMAT_FILE:
MSMg01no541_h03.b1 PHD_FILE: MSMg01no541_h03.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:21:06 2005
         (679 letters)



>mm_chr1_139892235_139893313
          Length = 1079

 Score = 1274 bits (659), Expect = 0.0
 Identities = 671/675 (99%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcttcaaggtcagctgttcctttgttcctgggtttatggtaatctacgacatcatg 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 879 gaattcttcaaggtcagctgttcctttgttcctgggtttatggtaatctacgacatcatg 820

                                                                       
Query: 65  cagagggaaccaatagtgagccaggttgcttatttcaaggctgcaaggagccaaagagaa 124
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 819 cagagggaaccaatattgagccaggttgcttatttcaaggctgcaaggagccaaagagaa 760

                                                                       
Query: 125 gacacagggtgtagtgggggattatgctcttcaaacacatttattcaatgacctaagttc 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 759 gacacagggtgtagtgggggattatgctcttcaaacacatttattcaatgacctaagttc 700

                                                                       
Query: 185 tttcattaggctacttctcctgaattttgcacaaccctacagtgccataggttagagaca 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 699 tttcattaggctacttctcctgaattttgcacaaccctacagtgccataggttagagaca 640

                                                                       
Query: 245 cagcctttagggtgtgtgtggggagtgaggggtgtggcgtgaagggaacaagggaagtcg 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 639 cagcctttagggtgtgtgtggggagtgaggggtgtggcgtgaagggaacaagggaagtcg 580

                                                                       
Query: 305 aaagggtcaaggtacaatacagggggaaaatgtagcacaaagtggagtgatagtaatctg 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 579 aaagggtcaaggtacaatacagggggaaaatgtagcacaaagtggagtgatagtaatctg 520

                                                                       
Query: 365 ggatatgcctgctgcttatgccacatggtatgtatgtgtgctgcctctttccttagagtt 424
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 519 ggatatgcctgctgcttatgccacatggtatgtatgtgtgctgcctctttccttagtgtt 460

                                                                       
Query: 425 cctcagtgatgaatgttttcccttcgtgtctcacatggcttgctttggtgacactgtcat 484
           |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 459 cctcagtgatgaatgttttccctttgtgtctcacatggcttgctttggtgacactgtcat 400

                                                                       
Query: 485 aggaatggtgagcaagcatgtgaagacttgactctcaggcactgaattactgcttaggtt 544
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 399 aggaatggtgagcaagcatgtgaagacttgactctcaggcactgaattactgcttaggtt 340

                                                                       
Query: 545 ctctattgtccctttttgtcgttgacactgtcttatgtaagcactggctctgggtctgca 604
           |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 339 ctctattgtcccttttggtcgttgacactgtcttatgtaagcactggctctgggtctgca 280

                                                                       
Query: 605 tgatgacgatcacaaaaataatgggttcattttcaaaaactcatgaccattcattctgtg 664
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 279 tgatgacgatcacaaaaataatgggttcattttcaaaaactcatgaccattcattctgtg 220

                          
Query: 665 aggaggacactcaca 679
           |||||||||||||||
Sbjct: 219 aggaggacactcaca 205


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: 29
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: 679
Length of database: 1079
Length adjustment: 10
Effective length of query: 669
Effective length of database: 1069
Effective search space:   715161
Effective search space used:   715161
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= MSMg01no541_h03.g1 MSMg01no541_h03.g1 CHROMAT_FILE:
MSMg01no541_h03.g1 PHD_FILE: MSMg01no541_h03.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:21:06 2005
         (612 letters)



>mm_chr1_139736018_139737029
          Length = 1012

 Score = 1116 bits (577), Expect = 0.0
 Identities = 601/609 (98%)
 Strand = Plus / Plus

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

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

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

                                                                       
Query: 181 tgaatactttgctctctccagggctacagggaaagtgggacgacaattatttccagtgaa 240
           ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||| 
Sbjct: 381 tgaatactttgctctctccagggttacagggaaagtgggacgacaattatttccagtgag 440

                                                                       
Query: 241 tcgaacccctcttccactccaggatgagtttgccaaagctgttcaataggagaacgtcag 300
           |||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct: 441 tcgaacccctcttccactccaggatgaggttgccaaagctgttcaataggagaacgtcag 500

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

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

                                                                       
Query: 421 tttgtttgggagaagcacttcattgaattgtggaagtttttagaatatctattgtatttt 480
           ||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct: 621 tttgtttgggagaagcacttcattgaactgtggaagtttttagaatatctattgtatttt 680

                                                                       
Query: 481 agagaaagaaggacaaggaaaagaatatcctgtgatcaaaacaacactcctacctatctt 540
           ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 agagagagaaggacaaggaaaagaatatcctgtgatcaaaacaacactcctacctatctt 740

                                                                       
Query: 541 taaaagataaagctgctggatgttggtggcgctcacctttaatcccagcacttgggagtc 600
           ||||||||||||||||||| |||||||||| ||||||||||||||||||||||||||| |
Sbjct: 741 taaaagataaagctgctgggtgttggtggcactcacctttaatcccagcacttgggaggc 800

                    
Query: 601 agaggcagg 609
           |||||||||
Sbjct: 801 agaggcagg 809


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: 29
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: 612
Length of database: 1012
Length adjustment: 10
Effective length of query: 602
Effective length of database: 1002
Effective search space:   603204
Effective search space used:   603204
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 |