BAC Information

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BAC

Clone NameMSMg01-209J18
Chromosome9 (Build37)
Map Location 107,554,417 - 107,658,423
singlet/doubletdoublet
Overlap geneSlc38a3, Gnat1, Sema3f, Rbm5
Upstream geneGrm2, Tex264, Rad54l2, LOC100041128, Vprbp, Armet, Dock3, Mapkapk3, Cish, Hemk1, 6430571L13Rik, Cacna2d2, Tmem115, Cyb561d2, Tusc4, Zmynd10, Rassf1, Tusc2, Hyal2, Hyal1, Nat6, Hyal3, Ifrd2, BY080835, Sema3b, Gnai2
Downstream geneRbm6, Mon1a, Mst1r, 4921517D21Rik, Camkv, Traip, Ube1l, D330022A01Rik, 6230427J02Rik, 1700021K14Rik, Ihpk1, Gmppb, Rnf123, Amigo3, Mst1, Apeh, Bsn, LOC100042108, Dag1, Nicn1, EG434437, Tcta, Rhoa, Gpx1, Usp4, LOC623859, 1700102P08Rik, Ccdc36, BC048562, Klhdc8b, LOC100042228, Ccdc71, Lamb2, Usp19, Qars, Qrich1, Impdh2, 4733401H18Rik, Dalrd3, Wdr6, 4933406E20Rik, Arih2, ENSMUSG00000074075, Slc25a20, Prkar2a
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-209J18.T7 (MSMg01no209_j18.b1)MSMg01-209J18.TJ (MSMg01no209_j18.g1)
ACCAG392073AG392074
length744747
length of high quality
(start - end)
320 (46 - 365)291 (77 - 367)
definitionCHROMAT_FILE: MSMg01no209_j18.b1 PHD_FILE: MSMg01no209_j18.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:33:47 2005CHROMAT_FILE: MSMg01no209_j18.g1 PHD_FILE: MSMg01no209_j18.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:33:47 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(107,658,108 - 107,658,423)(107,554,417 - 107,554,707)
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCATAGGGTATGAAATTTTAGGCATATGCCCTTTGTCTAGGATAAAT
ACTAGCAGCTTTTGCTTTTGTAGTTAGTTATTGAGTTACTGGTGGCTTCA
CTGCTCTAACCCACATGATGACTAGAAAGCCTGGACCAATGTAAGAAATA
ATTACAGATAAAACTTTTTTTTTTCCAGTGCTGCCTTAACAATTTCAGGA
AAAGACTAAAATGCTTCCGATGTGGAGCAGACAAGTTTGGTAAGCGTGGA
TTCAGCTGTTTGGAAAATGCAATTAAACCTGACTTACTGCCTGTAAACCC
GAGGAAAAAAATGTATTTTTCTACCCCCCCCCCCCCTAGGAACTTACATA
ATAATGTAACGCTTTTTACCTTGCCCTAAGTAGATGCTGATGCTGATTGT
GAAAGAACACAAAATTCTTTTCCAAAATTAAGGTGCTGTTCGCCTGGTTT
GCATGCTACGTCTGCTTTTGTTTAATACATAGTGGTACTATCTCCCACTG
GTCCAGTAGTTACATTCCATATTAGCGGTCAGAATTACTAGGTTAAAGTA
TAGCCATAGATTTCCTAAAAGAAAAGACAATATCATGGCGCCTCATACTT
TTGCTGAATTATAATACAAAGTTCACAGCCTACATGGGCTATATAGTAGG
CTTCAAGGTGACCTAAGTTACATAGGAATATTATCAAGGAATGG
CCGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXCCTTAGCACTGCCCCAGCCCATGG
GCACCAAGGCCCCTCCTACCAGGATTTTAGGGGTGGATCTTGCAGGCTCC
TTGTCAGTGGGCATGATTCGGAAGTAGAAGATGGCAGGGAAGATGAAGAT
GAGGCACGGAGCAGATGTGGCACCTGCAGAGAACAGAACTTAGCAACAGC
TGCTCTCACTCGCCTACTGGCCAAGGTCTGAAGTGGACTCCCAGTGAGAT
CAAGTAGTCTCCGTTGGAGGAGAGCCTATATTCTGGGGGAGCCCACCAGC
CTTTCCCTCTCTTGTTCTCTCTCCACCCCCCCCCCCGGCCGATGGTGTTG
GCGGGTAAGGAAAATATATGACAATGAAGCTAGCCATGAAGAAAAGAAGC
TTATGACAGAATAAACCCCTAAGGAAACTGGGTTCTTTGGGCTGGTGAGC
TGGCTCAGCAGTTTCCAGAGGTCCTAAGTTCAATACCCAGCAAGGGCATG
GTGTCTCACAGCCATCTATAAGTGGATCTGATGCCCTCTTGTGACATTTA
GATATACACACAGTAGAGCACTCACATACATACATACTTACATACCTCAC
TACATACATTCTTACTCCCCTACCTACTTACTAGAATACTGGTTTCCTAA
CACAGTTTTGCTACAGTTTTGTATCTTGAGTGTTCCCCCAGTGCCAG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no209_j18.b1 MSMg01no209_j18.b1 CHROMAT_FILE:
MSMg01no209_j18.b1 PHD_FILE: MSMg01no209_j18.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:33:47 2005
         (320 letters)



>mm_chr9_107657904_107658623
          Length = 720

 Score =  603 bits (312), Expect = e-177
 Identities = 315/316 (99%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcatagggtatgaaattttaggcatatgccctttgtctaggataaatactagcagc 64
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 520 gaattcatagggtgtgaaattttaggcatatgccctttgtctaggataaatactagcagc 461

                                                                       
Query: 65  ttttgcttttgtagttagttattgagttactggtggcttcactgctctaacccacatgat 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 460 ttttgcttttgtagttagttattgagttactggtggcttcactgctctaacccacatgat 401

                                                                       
Query: 125 gactagaaagcctggaccaatgtaagaaataattacagataaaacttttttttttccagt 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 400 gactagaaagcctggaccaatgtaagaaataattacagataaaacttttttttttccagt 341

                                                                       
Query: 185 gctgccttaacaatttcaggaaaagactaaaatgcttccgatgtggagcagacaagtttg 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 340 gctgccttaacaatttcaggaaaagactaaaatgcttccgatgtggagcagacaagtttg 281

                                                                       
Query: 245 gtaagcgtggattcagctgtttggaaaatgcaattaaacctgacttactgcctgtaaacc 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 280 gtaagcgtggattcagctgtttggaaaatgcaattaaacctgacttactgcctgtaaacc 221

                           
Query: 305 cgaggaaaaaaatgta 320
           ||||||||||||||||
Sbjct: 220 cgaggaaaaaaatgta 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: 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: 320
Length of database: 720
Length adjustment: 9
Effective length of query: 311
Effective length of database: 711
Effective search space:   221121
Effective search space used:   221121
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= MSMg01no209_j18.g1 MSMg01no209_j18.g1 CHROMAT_FILE:
MSMg01no209_j18.g1 PHD_FILE: MSMg01no209_j18.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:33:47 2005
         (291 letters)



>mm_chr9_107554217_107554907
          Length = 691

 Score =  563 bits (291), Expect = e-165
 Identities = 291/291 (100%)
 Strand = Plus / Plus

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

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

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

                                                                       
Query: 181 cactcgcctactggccaaggtctgaagtggactcccagtgagatcaagtagtctccgttg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 cactcgcctactggccaaggtctgaagtggactcccagtgagatcaagtagtctccgttg 440

                                                              
Query: 241 gaggagagcctatattctgggggagcccaccagcctttccctctcttgttc 291
           |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 gaggagagcctatattctgggggagcccaccagcctttccctctcttgttc 491


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: 16
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: 291
Length of database: 691
Length adjustment: 9
Effective length of query: 282
Effective length of database: 682
Effective search space:   192324
Effective search space used:   192324
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)