BAC Information

Click to search

BAC

Clone NameMSMg01-540G20
Chromosome1 (Build37)
Map Location 172,635,336 - 172,769,050
singlet/doubletdoublet
Overlap geneAtf6
Upstream geneRgs4, LOC100039960, 1700084C01Rik, Hsd17b7, Ddr2, LOC100040571, Uap1, Uhmk1, Sh2d1b2, EG622708, Sh2d1b1, EG665574, 1700015E13Rik, Nos1ap, LOC100040002, LOC640532, Olfml2b
Downstream geneDusp12, Fcrlb, Fcrla, LOC100040778, Fcgr2b, Fcgr4, Fcgr3, 1700009P17Rik, Sdhc, Mpz, Pcp4l1, Nr1i3, Tomm40l, Apoa2, Fcer1g, Ndufs2, Adamts4, B4galt3, Ppox, Usp21, Ufc1, EG622236, Dedd, Nit1, Pfdn2, 1190002J23Rik, Pvrl4, Arhgap30, Usf1, EG226654, F11r, Refbp2, Itlna, Cd244, Ly9, Slamf7, Cd48, LOC100041098, Slamf1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-540G20.T7 (MSMg01no540_g20.b1)MSMg01-540G20.TJ (MSMg01no540_g20.g1)
ACCAG606681AG606682
length745738
length of high quality
(start - end)		659 (50 - 708)649 (78 - 726)
definitionCHROMAT_FILE: MSMg01no540_g20.b1 PHD_FILE: MSMg01no540_g20.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:19:41 2005CHROMAT_FILE: MSMg01no540_g20.g1 PHD_FILE: MSMg01no540_g20.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:19:42 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(172,635,336 - 172,635,990)(172,768,410 - 172,769,050)
sequence
NGGCCTTTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXC
GCGGAATTCAGTCTGCTGGTTCAGTCTGGAACTAGCATCCTGGGGAATAT
GCTACACTTCCTGCTTCATTTCACTATAGTCACCAGCTTGACGGAGGACA
AAAAGCCCACCAGTGTGTTATTTGTTGACCTCCACAGATGACTCATTGAC
TCTTTAGTTCCTGAACCCAATATAATTAAGTCTTTTCATGTACTAAGTCT
GTAATGCTTAAAGCTAGCCAAGCACAGGGTTGCTTTGTGACACTGGCTGG
CCATGCCATGACTCACAAAGTTTCCTAATCACACAGTCTTATCTTTTTTT
TCCCCATAGATTCTATGAGTACCTGACAGATATTAGAATTGCTGCAAGTT
CTAGTAATATCCAAAATAAACTATGTTTTAAGCTTAGTTATTAAAAATAT
AAGCTAATAGAATACTAATAGTTTCCTTAGGTAGGAGAAAACTGTATTTT
CTCTATGTGCATAGTTCCTTTCGGACTCTGGGAATATCTTCCTAGGCAGT
CCAGTAGTTACTTAAAAATCACCCACAATTCCTGTAGTGGGCACCAGGGA
GGAAATGTCTCTTTCCAAGTGCTATCAGGGTGGGAATGACAATGTCCTCA
ATCCATTATCTTCCTTCTAGGCCTTACTTTTTTTCTTTTGGTTAAAAATA
TAACTGGTGTTCATATTAGCAGCAAAAAAAAAAAATCATTACTTA

NNNCCAATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXACTCTGTAGGCCAGGCTGGCCTG
GAACTCAGAGATCCGCCTGCCTCTGTCTCCTGAGTGTAGGGATTAAAAAA
GGTGTGCGCCACCACCTCCAGCCCGAGATCTCTAGCAAGATAAAGATAGA
TTTTTTTTTTTTGCGCAGCTTATCAGTTCCAGAGATTAAAAGTATACATT
TTGAATTTCAATAATTTTATATGATCTGAAAACTATATTTTTGATGAGCA
TGTGCCAATAAAATGGTTTGTTTTTATAATATAATCTTTGGTATTAATAT
TATAATCTGAAGTTTAATTATGTATCTTTCATACTTTTTAAAAAATTTGA
CCTTGGAATGAGAAGAAGGAAGTGCTGGGGAGATGGCTTTATCAGTAAAG
CGCTTGCCGCAGAAGCACTAGGACCTGAGCTCAGATTCCCAGCGCCCACA
TGGAAAGCTGGGTGCCCTAGTGCCTCTCTAGAAGTAGGCAGATCCCTGGA
GGTCACCAACCAGCCTGTCTAGCCAATTGATCCAATTTCAACGAGAGACC
GTTTCAAATCTAAGGCAGAGAGCCACTGAAGAAGTACCCAGCAGCAGCCT
CTGGCCTCCACACACATGTGCACTCACGTGTATGTGCATTCACGTGAAAA
CACGTACATGCATATACTATGTGGACAAAAAAGAAAAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no540_g20.b1 MSMg01no540_g20.b1 CHROMAT_FILE:
MSMg01no540_g20.b1 PHD_FILE: MSMg01no540_g20.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:19:41 2005
         (659 letters)



>mm_chr1_172635132_172636190
          Length = 1059

 Score = 1266 bits (655), Expect = 0.0
 Identities = 655/655 (100%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcagtctgctggttcagtctggaactagcatcctggggaatatgctacacttcctg 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattcagtctgctggttcagtctggaactagcatcctggggaatatgctacacttcctg 264

                                                                       
Query: 65  cttcatttcactatagtcaccagcttgacggaggacaaaaagcccaccagtgtgttattt 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 cttcatttcactatagtcaccagcttgacggaggacaaaaagcccaccagtgtgttattt 324

                                                                       
Query: 125 gttgacctccacagatgactcattgactctttagttcctgaacccaatataattaagtct 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 gttgacctccacagatgactcattgactctttagttcctgaacccaatataattaagtct 384

                                                                       
Query: 185 tttcatgtactaagtctgtaatgcttaaagctagccaagcacagggttgctttgtgacac 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 tttcatgtactaagtctgtaatgcttaaagctagccaagcacagggttgctttgtgacac 444

                                                                       
Query: 245 tggctggccatgccatgactcacaaagtttcctaatcacacagtcttatcttttttttcc 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 445 tggctggccatgccatgactcacaaagtttcctaatcacacagtcttatcttttttttcc 504

                                                                       
Query: 305 ccatagattctatgagtacctgacagatattagaattgctgcaagttctagtaatatcca 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 ccatagattctatgagtacctgacagatattagaattgctgcaagttctagtaatatcca 564

                                                                       
Query: 365 aaataaactatgttttaagcttagttattaaaaatataagctaatagaatactaatagtt 424
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 565 aaataaactatgttttaagcttagttattaaaaatataagctaatagaatactaatagtt 624

                                                                       
Query: 425 tccttaggtaggagaaaactgtattttctctatgtgcatagttcctttcggactctggga 484
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 625 tccttaggtaggagaaaactgtattttctctatgtgcatagttcctttcggactctggga 684

                                                                       
Query: 485 atatcttcctaggcagtccagtagttacttaaaaatcacccacaattcctgtagtgggca 544
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 685 atatcttcctaggcagtccagtagttacttaaaaatcacccacaattcctgtagtgggca 744

                                                                       
Query: 545 ccagggaggaaatgtctctttccaagtgctatcagggtgggaatgacaatgtcctcaatc 604
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 745 ccagggaggaaatgtctctttccaagtgctatcagggtgggaatgacaatgtcctcaatc 804

                                                                  
Query: 605 cattatcttccttctaggccttactttttttcttttggttaaaaatataactggt 659
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 805 cattatcttccttctaggccttactttttttcttttggttaaaaatataactggt 859


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: 32
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: 659
Length of database: 1059
Length adjustment: 10
Effective length of query: 649
Effective length of database: 1049
Effective search space:   680801
Effective search space used:   680801
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= MSMg01no540_g20.g1 MSMg01no540_g20.g1 CHROMAT_FILE:
MSMg01no540_g20.g1 PHD_FILE: MSMg01no540_g20.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:19:42 2005
         (649 letters)



>mm_chr1_172768410_172769458
          Length = 1049

 Score = 1239 bits (641), Expect = 0.0
 Identities = 641/641 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   actctgtaggccaggctggcctggaactcagagatccgcctgcctctgtctcctgagtgt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 641 actctgtaggccaggctggcctggaactcagagatccgcctgcctctgtctcctgagtgt 582

                                                                       
Query: 61  agggattaaaaaaggtgtgcgccaccacctccagcccgagatctctagcaagataaagat 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 581 agggattaaaaaaggtgtgcgccaccacctccagcccgagatctctagcaagataaagat 522

                                                                       
Query: 121 agattttttttttttgcgcagcttatcagttccagagattaaaagtatacattttgaatt 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 521 agattttttttttttgcgcagcttatcagttccagagattaaaagtatacattttgaatt 462

                                                                       
Query: 181 tcaataattttatatgatctgaaaactatatttttgatgagcatgtgccaataaaatggt 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 461 tcaataattttatatgatctgaaaactatatttttgatgagcatgtgccaataaaatggt 402

                                                                       
Query: 241 ttgtttttataatataatctttggtattaatattataatctgaagtttaattatgtatct 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 401 ttgtttttataatataatctttggtattaatattataatctgaagtttaattatgtatct 342

                                                                       
Query: 301 ttcatactttttaaaaaatttgaccttggaatgagaagaaggaagtgctggggagatggc 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 341 ttcatactttttaaaaaatttgaccttggaatgagaagaaggaagtgctggggagatggc 282

                                                                       
Query: 361 tttatcagtaaagcgcttgccgcagaagcactaggacctgagctcagattcccagcgccc 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 281 tttatcagtaaagcgcttgccgcagaagcactaggacctgagctcagattcccagcgccc 222

                                                                       
Query: 421 acatggaaagctgggtgccctagtgcctctctagaagtaggcagatccctggaggtcacc 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 221 acatggaaagctgggtgccctagtgcctctctagaagtaggcagatccctggaggtcacc 162

                                                                       
Query: 481 aaccagcctgtctagccaattgatccaatttcaacgagagaccgtttcaaatctaaggca 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 161 aaccagcctgtctagccaattgatccaatttcaacgagagaccgtttcaaatctaaggca 102

                                                                       
Query: 541 gagagccactgaagaagtacccagcagcagcctctggcctccacacacatgtgcactcac 600
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 101 gagagccactgaagaagtacccagcagcagcctctggcctccacacacatgtgcactcac 42

                                                    
Query: 601 gtgtatgtgcattcacgtgaaaacacgtacatgcatatact 641
           |||||||||||||||||||||||||||||||||||||||||
Sbjct: 41  gtgtatgtgcattcacgtgaaaacacgtacatgcatatact 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: 32
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: 649
Length of database: 1049
Length adjustment: 10
Effective length of query: 639
Effective length of database: 1039
Effective search space:   663921
Effective search space used:   663921
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 |