BAC Information

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BAC

Clone NameMSMg01-368G03
Chromosome1 (Build37)
Map Location 40,034,732 - 40,250,676
singlet/doubletdoublet
Overlap geneMap4k4, Il1r2
Upstream genePdcl3, Npas2, LOC100041999, Rpl31, Tbc1d8, D1Bwg0212e, Rnf149, EG329126, Creg2, 4933400N17Rik, LOC100042065
Downstream geneIl1r1, Il1rl2, Il1rl1, Il18r1, Il18rap, Slc9a4, Slc9a2, Mfsd9, Tmem182, Ppia-ps1_352.1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-368G03.T7 (MSMg01no368_g03.b1)MSMg01-368G03.TJ (MSMg01no368_g03.g1)
ACCAG475623AG475624
length757749
length of high quality
(start - end)		220 (63 - 282)551 (75 - 625)
definitionCHROMAT_FILE: MSMg01no368_g03.b1 PHD_FILE: MSMg01no368_g03.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:05:48 2005CHROMAT_FILE: MSMg01no368_g03.g1 PHD_FILE: MSMg01no368_g03.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:05:48 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(40,034,732 - 40,034,948)(40,250,235 - 40,250,676)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCCC
AGATTTCCGCTTCAATGTCTCTCTGCTTATATATTTTCTGGAGCTTTCAA
GAAAGGTGGGAGTGTGATGTTAGGAGAATCCATAATGCCTTACACTTGTC
CTCACTGAGTATCAGGTGCCTGCCTTTTATGGCTCTCAGGAGAGTTGAGC
CTAAAAGGGAGAGGCTGCTGTCCTAGGGCTCAGTAATGAACCCTCAGGCC
CGGTTCAGCAGCAAGGACAGGGTGCATCCGTAGAGGTGGCTAGGCATGGG
GATGAGGCGCTTGTCTGATAGCTGTTGGCTGTTCAAAAGTACGCACACCT
TTTTGTAGGCAGTAGCTTTAGATTTGTGGGCATCTGCTTTGGCTTCTTGT
GTGCTGCAAAATTTCAAGGATAGAGCACCACTCTAGGTAGATACAAGAAA
TCCGTGTTTTTAGCATCATTTTCTAGACATAGGATGTATCTCAGATATCA
CAGATGATTGCCTGTTTCTAATCCGGGTGAGAGCAGGCTACCTTGTCTGC
GTAATGTCACCCTTGACTTCTTGTAACTTGGCCGAGAACCTTAATTTTGC
TCGTAGCCTCTATACATCTGTGCCGCAACATGCCACCTTCTTTGATATGC
CTATAGATTGTTTCCCTCCCTCAATGAGCTTTCCCTTAAATAACAACCCC
CCTCTCATCCTCTTGATGTTGTCCCACCCCCTTTTAAATTCTTTCCATGA
TTATACN

AATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXAAAGGAGCCAGAAGATTAGAACAGTG
CTGAATTTAATGTAAGGCCAAGCAGAACAATTGAGTAAGAAACTGAGAGA
AGCCAGATTGAATCAATCAGCTGTGAGAGGAGTTTGAACCAGAACAGATG
AGTTAAATCAACTAGAAAGGGTAAGCTTTCTCTGCAGTAAGTCTCAGAGG
TTGGAAACATTCTAAGCCTAGATAAGATCAAACAGAGGCTAAAAGCATCC
AAGACTAGGTCTAGGTTGGCAGATGGAGGCAGTAAGCCTTTGAGACAACA
ATTACATTCAGAAGAATAAAAGTTACTCTTACATAAGCGTCCAAAGATTT
TTATGACAGAGACATTGGTCTTGGTCAGTCTCTCCCAGACTAGATGCTGT
GATATCACATCAAACAATGGATCACATCAAACAATGGATCAAACAAAACT
AAACTCCTGCAGGATCTTCCAGTAAAAAATATCAAGTTATATATGCCAAT
AGGCTGCTAGAGAGCCTTCTTTGAGCTTCGAATTCTGCTTTATGACTTTG
GCCCTTGCTTTCTTAACCTTCTGTATAACTGATATCTTCTAGATTAAAGG
CCATTGTATGTCCTAGGGATACCACCATTATCATCGGGATTTGATTCCCT
CCCCTGGCTTCAAGGACCCCTCTATTTCCAAATAGGGGGAACCTTAGTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no368_g03.b1 MSMg01no368_g03.b1 CHROMAT_FILE:
MSMg01no368_g03.b1 PHD_FILE: MSMg01no368_g03.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:05:48 2005
         (220 letters)



>mm_chr1_40034532_40035151
          Length = 620

 Score =  404 bits (209), Expect = e-117
 Identities = 215/217 (99%)
 Strand = Plus / Plus

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

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

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

                                                
Query: 181 ctcaggcccggttcagcagcaaggacagggtgcatcc 217
           |||||||| |||||||||||||||||||| |||||||
Sbjct: 381 ctcaggccgggttcagcagcaaggacaggctgcatcc 417


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: 10
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: 220
Length of database: 620
Length adjustment: 9
Effective length of query: 211
Effective length of database: 611
Effective search space:   128921
Effective search space used:   128921
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)

Query= MSMg01no368_g03.g1 MSMg01no368_g03.g1 CHROMAT_FILE:
MSMg01no368_g03.g1 PHD_FILE: MSMg01no368_g03.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:05:48 2005
         (551 letters)



>mm_chr1_40249726_40250676
          Length = 951

 Score =  839 bits (434), Expect = 0.0
 Identities = 440/442 (99%)
 Strand = Plus / Minus

                                                                       
Query: 110 ttgaaccagaacagatgagttaaatcaactagaaagggtaagctttctctgcagtaagtc 169
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 951 ttgaaccagaacagatgagttaaatcaactagaaagggtaagctttctctgcagtaagtc 892

                                                                       
Query: 170 tcagaggttggaaacattctaagcctagataagatcaaacagaggctaaaagcatccaag 229
           ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 891 tcagaggttagaaacattctaagcctagataagatcaaacagaggctaaaagcatccaag 832

                                                                       
Query: 230 actaggtctaggttggcagatggaggcagtaagcctttgagacaacaattacattcagaa 289
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 831 actaggtctaggttggcagatggaggcagtaagcctttgagacaacaattacattcagaa 772

                                                                       
Query: 290 gaataaaagttactcttacataagcgtccaaagatttttatgacagagacattggtcttg 349
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 771 gaataaaagttactcttacataagcgtccaaagatttttatgacagagacattggtcttg 712

                                                                       
Query: 350 gtcagtctctcccagactagatgctgtgatatcacatcaaacaatggatcacatcaaaca 409
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 711 gtcagtctctcccagactagatgctgtgatatcacatcaaacaatggatcacatcaaaca 652

                                                                       
Query: 410 atggatcaaacaaaactaaactcctgcaggatcttccagtaaaaaatatcaagttatata 469
           ||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct: 651 atggatcaaacaaaactaaactcctgcagaatcttccagtaaaaaatatcaagttatata 592

                                                                       
Query: 470 tgccaataggctgctagagagccttctttgagcttcgaattctgctttatgactttggcc 529
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 591 tgccaataggctgctagagagccttctttgagcttcgaattctgctttatgactttggcc 532

                                 
Query: 530 cttgctttcttaaccttctgta 551
           ||||||||||||||||||||||
Sbjct: 531 cttgctttcttaaccttctgta 510


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: 26
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: 551
Length of database: 951
Length adjustment: 10
Effective length of query: 541
Effective length of database: 941
Effective search space:   509081
Effective search space used:   509081
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)


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