BAC Information

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BAC

Clone NameMSMg01-416L16
Chromosome2 (Build37)
Map Location 146,145,773 - 146,297,115
singlet/doubletdoublet
Overlap geneA230067G21Rik
Upstream geneSlc24a3, LOC627312, OTTMUSG00000015643, LOC433482, LOC100043810, Rin2, Nat5, Crnkl1, 4930529M08Rik, LOC100043563, Insm1
Downstream geneLOC668918, Gm114, Xrn2, Nkx2-4, Nkx2-2, LOC100043816, LOC668919, LOC668920, Pax1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-416L16.T7 (MSMg01no416_l16.b1)MSMg01-416L16.TJ (MSMg01no416_l16.g1)
ACCAG512477AG512478
length714730
length of high quality
(start - end)		633 (36 - 668)534 (74 - 607)
definitionCHROMAT_FILE: MSMg01no416_l16.b1 PHD_FILE: MSMg01no416_l16.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:35:25 2005CHROMAT_FILE: MSMg01no416_l16.g1 PHD_FILE: MSMg01no416_l16.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:35:25 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(146,296,487 - 146,297,115)(146,145,773 - 146,146,306)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCCTCGT
TCCTGCATAGGTCATTATGTCTCTTCTCTGTCCCTTCTTTGGTGGTCTGG
GAAGCACTGAAGTGAGAGGTAAATTGCAGCAGGTGAGCTGCACAGTGGGT
ACAGGTGATGCCTGGGCCTTTTGAAAGGCACACAGATGAAGGGCACACAG
ATGAAGGGCATGAATAACCACAGGCACGGGTGTCTGCATTTCCCTCAGTA
CGCAGGGTGGCATAAGTACGTTATCTTCCCTCCCCAAAGATTGTGGGGAT
GCTGGATCAGAGCCAGGGCGTTCATTTGCAAAGCCTTGCCCACAGCTGTG
TTCAGGAGTTATTGTATGACCGCTGGTGAGCCTAGGGCTGCAGTAGGTTT
TACATGTCACTTTAGCAGATTTCCATGGTGGGTTTCTTCCTCAATGCTCA
GGTGAGCTTTGTAGAGAGAATGAGTTTAGCTTCTCATGATTTCTCCAAGT
AAGGAAAAGAGACTTTCAACTTCTTTCCTGAAATCGGTCACATGGCTTGT
CCCAGCACTGTGTTAGGAGCTCTGCAAGTAGGGTGAAACCAAAGTCTGGC
TTTCATTCCTCTGACACTGCTTTGGATTTGAGTGCCACCCCTAGCTTGAT
TGTTGATTTTATTACTATCTCTTCTTGGNGCATGCATTTACTGGATACTA
AATCCAGTAAATAA

CGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXCACAGGAATTATGAACAGAAAGGGAAT
ATTTACACTTCTGCTTTTAAGTCTGAGATACTCAAGTGAGAGATAGGTAA
ATCAATTAAAATTTAGTATTAGAAGAGGCTTTTTCTGCTTGGAAAAAAAA
AACCCAATGAGATAATTTGTGAAATGTAAACGCATTACATTTGAAGCACT
TTTCATGTGCTCTGTGGTTCAGGGTATGGCAAGGGAAAACAGGGGTGTCT
TCAGGAGTACACAGTTCTCTTTAAGGGAAACACTCTTAAGGACTGGGCTG
CTCAGGAAACAGCTCACTGAATTTGTGCTAGTTTCCTGAAAGGTGAGGAA
AAGCTGATTTAAACTATTTTGCAGACCCCAAGGGTCTTAGACAGAGTAAA
TAATTTCCAATGACTAAGCCCTGTTGGGAAACAACATGGCTACTCAATGA
ATGTCTTAGAAATAAGCTGATTACTTGATTTGTTCCACATACATAATTAG
TCGATGGGTTCTAATAGCTTAGGAACATCTGAATCGATAAGGAGTTAAAT
GGTTGTGGCTGAGTTCTAAGCTTGGAGCTGTAATGGAGAGGATGTCATTT
CCCCAACTATTCTATAGCCCCATTTTTACAGAACTCAGTGAAGCCTGGAG
CGNATTGCTGCTTTTCTCAAGGGCATCAAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no416_l16.b1 MSMg01no416_l16.b1 CHROMAT_FILE:
MSMg01no416_l16.b1 PHD_FILE: MSMg01no416_l16.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:35:25 2005
         (633 letters)



>mm_chr2_146296283_146297315
          Length = 1033

 Score = 1201 bits (621), Expect = 0.0
 Identities = 627/629 (99%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcctcgttcctgcataggtcattatgtctcttctctgtcccttctttggtggtctg 64
           |||||||||||||| | |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 833 gaattcctcgttccaggataggtcattatgtctcttctctgtcccttctttggtggtctg 774

                                                                       
Query: 65  ggaagcactgaagtgagaggtaaattgcagcaggtgagctgcacagtgggtacaggtgat 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 773 ggaagcactgaagtgagaggtaaattgcagcaggtgagctgcacagtgggtacaggtgat 714

                                                                       
Query: 125 gcctgggccttttgaaaggcacacagatgaagggcacacagatgaagggcatgaataacc 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 713 gcctgggccttttgaaaggcacacagatgaagggcacacagatgaagggcatgaataacc 654

                                                                       
Query: 185 acaggcacgggtgtctgcatttccctcagtacgcagggtggcataagtacgttatcttcc 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 653 acaggcacgggtgtctgcatttccctcagtacgcagggtggcataagtacgttatcttcc 594

                                                                       
Query: 245 ctccccaaagattgtggggatgctggatcagagccagggcgttcatttgcaaagccttgc 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 593 ctccccaaagattgtggggatgctggatcagagccagggcgttcatttgcaaagccttgc 534

                                                                       
Query: 305 ccacagctgtgttcaggagttattgtatgaccgctggtgagcctagggctgcagtaggtt 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 533 ccacagctgtgttcaggagttattgtatgaccgctggtgagcctagggctgcagtaggtt 474

                                                                       
Query: 365 ttacatgtcactttagcagatttccatggtgggtttcttcctcaatgctcaggtgagctt 424
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 473 ttacatgtcactttagcagatttccatggtgggtttcttcctcaatgctcaggtgagctt 414

                                                                       
Query: 425 tgtagagagaatgagtttagcttctcatgatttctccaagtaaggaaaagagactttcaa 484
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 413 tgtagagagaatgagtttagcttctcatgatttctccaagtaaggaaaagagactttcaa 354

                                                                       
Query: 485 cttctttcctgaaatcggtcacatggcttgtcccagcactgtgttaggagctctgcaagt 544
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 353 cttctttcctgaaatcggtcacatggcttgtcccagcactgtgttaggagctctgcaagt 294

                                                                       
Query: 545 agggtgaaaccaaagtctggctttcattcctctgacactgctttggatttgagtgccacc 604
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 293 agggtgaaaccaaagtctggctttcattcctctgacactgctttggatttgagtgccacc 234

                                        
Query: 605 cctagcttgattgttgattttattactat 633
           |||||||||||||||||||||||||||||
Sbjct: 233 cctagcttgattgttgattttattactat 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: 33
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: 633
Length of database: 1033
Length adjustment: 10
Effective length of query: 623
Effective length of database: 1023
Effective search space:   637329
Effective search space used:   637329
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= MSMg01no416_l16.g1 MSMg01no416_l16.g1 CHROMAT_FILE:
MSMg01no416_l16.g1 PHD_FILE: MSMg01no416_l16.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:35:25 2005
         (534 letters)



>mm_chr2_146145573_146146506
          Length = 934

 Score = 1033 bits (534), Expect = 0.0
 Identities = 534/534 (100%)
 Strand = Plus / Plus

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

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

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

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

                                                                       
Query: 241 gttctctttaagggaaacactcttaaggactgggctgctcaggaaacagctcactgaatt 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 gttctctttaagggaaacactcttaaggactgggctgctcaggaaacagctcactgaatt 500

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

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

                                                                       
Query: 421 tcaatgaatgtcttagaaataagctgattacttgatttgttccacatacataattagtcg 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 tcaatgaatgtcttagaaataagctgattacttgatttgttccacatacataattagtcg 680

                                                                 
Query: 481 atgggttctaatagcttaggaacatctgaatcgataaggagttaaatggttgtg 534
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 atgggttctaatagcttaggaacatctgaatcgataaggagttaaatggttgtg 734


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: 25
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: 534
Length of database: 934
Length adjustment: 10
Effective length of query: 524
Effective length of database: 924
Effective search space:   484176
Effective search space used:   484176
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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