BAC Information

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BAC

Clone NameMSMg01-079F13
Chromosome4 (Build37)
Map Location 42,902,768 - 43,039,301
singlet/doubletdoublet
Overlap geneN28178, Dnajb5, 1700022I11Rik, Vcp, Fancg, Pigo
Upstream geneLOC100042519, LOC100039817, LOC100042536, LOC100039824, LOC100042539, LOC100042544, LOC100039848, LOC100039863, LOC100042555, 1700045I11Rik, LOC100039894, LOC100039909, EG545605, LOC674214, LOC100038965, LOC100039053, LOC100039193, LOC100039374, LOC100039930, LOC100038993, LOC100039939, Ccl19-ps3, Ccl21c, LOC100039323, LOC665845, LOC100039973, LOC100039986, 4933409K07Rik, LOC100039344, LOC100039995, EG623054, Ccl19-ps2, LOC100039331, LOC100039131, LOC100040035, LOC100040048, Il11ra2, LOC665962, LOC545614, 1700008B15Rik, Ccl19, Ccl21b, LOC100039205, LOC433698, BC049635
Downstream geneStoml2, B230312A22Rik, Unc13b, 4930417M19Rik, Rusc2, 4833436C18Rik, Tesk1, Cd72, Sit1, Rmrp, LOC622404, E130306D19Rik, Car9, Tpm2, Tln1, Creb3, Gba2, 1110029E03Rik, LOC100039672, LOC100040179, Npr2, Spag8, Hint2, Serf2-ps, 4930412F15Rik, Olfr70, Olfr71, LOC100039781, 5430416O09Rik, A630077J23Rik, GA_x5J8B7W5BNN-892919-892147, Olfr159, Olfr29-ps1, Olfr156, LOC100040268, Olfr155, Reck, Glipr2, Ccin, Clta
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-079F13.T7 (MSMg01no079_f13.b1)MSMg01-079F13.TJ (MSMg01no079_f13.g1)
ACCAG300447AG300448
length726713
length of high quality
(start - end)
328 (153 - 480)236 (74 - 309)
definitionCHROMAT_FILE: MSMg01no079_f13.b1 PHD_FILE: MSMg01no079_f13.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:27:57 2005CHROMAT_FILE: MSMg01no079_f13.g1 PHD_FILE: MSMg01no079_f13.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:27:57 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(42,902,768 - 42,903,092)(43,039,066 - 43,039,301)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCCAT
ATATTATCTCTCCTCGTGATTCTATCATCCTCATTATCCAGGAAATGTTA
GGGATATTAATGGAATCTTAAAATTAAACTTTGCATACTTTAGATTTCAG
AAACACTTGGAGTTTTACAGCCTAATGCAGCGGTCAGTGGGTTTTTTTCT
GTGAAGAACAAGATAATAAATAATGTAGGCTTTGTAGATAGTACGCTAGG
AAGGGCCAGACAGTAAATTATTTAGGTTTTGCAAATCCCATGCTAGGAAT
CCTCCTCCGGTCTCCTTCCCAGAAGGCAGTGCCGCAAGGTGAGTAAGGCG
CTGTCTGAGAGTTCTCGGAGCTCCCTCTAGTCTGCGCCTGCCAGCTGCCC
GAGTTTGGCGGCCCAGGCTGCCATCTTTGGGAGAAGGGATATTGCAAGGG
GAGATTGTGTGAGGTATGGGAGAGGAGATTTGATCCTGTGANCTCTATTC
CAACATAAATACACTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCA
TAGGTGCCCACACCCCTTAAGTACTACATACATCCTCATCTCTTTCCCCT
TGTAAACCTCCCTCTCCCCTTTCTCCCTCTTCCACCCCTCTCCTTTACCC
CTATACTTTCTCCCCTCTTATTCTTC
AGTGGGAGGCCTGGCGGCGCCTGGTTTCTTACCTGGGTGAACTATAGAAG
GATTTCAGCATCCACTTTGNAGACCAGGCTGACCTGGAACTCAGAAATAC
GCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGTGCCACCATTG
CCCGGCTAGTTTATGTTTTTTGTTACTGTGAAAGAGTGCTCTTGACAAGA
ACATCTAAAGGAGCTTGTTACCAGACAGTTTTAGTCCATCACGTTATGTA
AGTCTCAGCAGTGAGAACTTGAAGCATGGGGCTGGGAAGATGGCTCAGTG
ATTAAGAGCTTGNATTGTTCTTGCTGAAGACCAAAGTTTAGTTCCCAGCA
CCCAGACCTTGCGCTGAAAAACAACCAAAAATGGACAGTGAGTCTGGAGA
GAGGGCTTACTGGCTAAAAGCAATTGCAGCACAAAGTGCATTGTACAAAC
ATACACATAATAAAATGCTCAGTGGTCCCTGGGCTTTTCTTCTTTCATGC
TTCTGTACACACCCAGTCATCATCCCCCTCTCTTAGACCTTGCCCTCATT
TATGAATTACTGAACCTCCTATCAAAGTTTTCAGTCCCACGTTTCTTTTC
GAACTTCCCCGCTGGTGCCGGCAGGCGGCGACAAATCTCCTGGTAGGGCG
TTCTTTCTTGTTTGTACACCTCTGTGGTGCCAGACTGCGAGCCCAGCCGC
TGCCCTTCCGGGT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no079_f13.b1 MSMg01no079_f13.b1 CHROMAT_FILE:
MSMg01no079_f13.b1 PHD_FILE: MSMg01no079_f13.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:27:57 2005
         (328 letters)



>mm_chr4_42902565_42903292
          Length = 728

 Score =  590 bits (305), Expect = e-173
 Identities = 320/325 (98%)
 Strand = Plus / Plus

                                                                       
Query: 4   cttggagttttacagcctaatgcagcggtcagtgggtttttttctgtgaagaacaagata 63
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 204 cttggagttttacagcctaatgcagcggtcagtgggtttttttctgtgaagaacaagata 263

                                                                       
Query: 64  ataaataatgtaggctttgtagatagtacgctaggaagggccagacagtaaattatttag 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264 ataaataatgtaggctttgtagatagtacgctaggaagggccagacagtaaattatttag 323

                                                                       
Query: 124 gttttgcaaatcccatgctaggaatcctcctccggtctccttcccagaaggcagtgccgc 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 324 gttttgcaaatcccatgctaggaatcctcctccggtctccttcccagaaggcagtgccgc 383

                                                                       
Query: 184 aaggtgagtaaggcgctgtctgagagttctcggagctccctctagtctgcgcctgccagc 243
           |||| ||||||||||||||| |||||||||| |||||||||||||||||||||||||| |
Sbjct: 384 aaggcgagtaaggcgctgtccgagagttctctgagctccctctagtctgcgcctgccaac 443

                                                                       
Query: 244 tgcccgagtttggcggcccaggctgccatctttgggagaagggatattgcaaggggagat 303
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 444 tgcccgagtttggtggcccaggctgccatctttgggagaagggatattgcaaggggagat 503

                                    
Query: 304 tgtgtgaggtatgggagaggagatt 328
           |||||||||||||||||||||||||
Sbjct: 504 tgtgtgaggtatgggagaggagatt 528


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: 13
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: 328
Length of database: 728
Length adjustment: 9
Effective length of query: 319
Effective length of database: 719
Effective search space:   229361
Effective search space used:   229361
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= MSMg01no079_f13.g1 MSMg01no079_f13.g1 CHROMAT_FILE:
MSMg01no079_f13.g1 PHD_FILE: MSMg01no079_f13.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:27:57 2005
         (236 letters)



>mm_chr4_43038801_43039436
          Length = 636

 Score =  371 bits (192), Expect = e-107
 Identities = 225/236 (95%)
 Strand = Plus / Minus

                                                                       
Query: 1   ccaggctgacctggaactcagaaatacgcctgcctctgcctcccaagtgctgggattaaa 60
           ||||||||||||||||||||||||| ||||||| ||||||||||||||||||||||||||
Sbjct: 501 ccaggctgacctggaactcagaaatccgcctgcttctgcctcccaagtgctgggattaaa 442

                                                                       
Query: 61  ggcgtgtgccaccattgcccggctagtttatgttttttgttactgtgaaagagtgctctt 120
           ||||||  |||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct: 441 ggcgtgcaccaccattgcccggctagtttatgttttttgttactgtgaaaaagtgctctt 382

                                                                       
Query: 121 gacaagaacatctaaaggagcttgttaccagacagttttagtccatcacgttatgtaagt 180
           |||||||||||||||||||||| ||||||||||||||||||| |||||||  | | ||||
Sbjct: 381 gacaagaacatctaaaggagctagttaccagacagttttagttcatcacgggagggaagt 322

                                                                   
Query: 181 ctcagcagtgagaacttgaagcatggggctgggaagatggctcagtgattaagagc 236
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 ctcagcagtgagaacttgaagcatggggctgggaagatggctcagtgattaagagc 266


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: 8
Number of extensions: 3
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: 236
Length of database: 636
Length adjustment: 9
Effective length of query: 227
Effective length of database: 627
Effective search space:   142329
Effective search space used:   142329
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)