BAC Information

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BAC

Clone NameMSMg01-397O11
Chromosome6 (Build37)
Map Location 135,893,237 - 136,055,683
singlet/doubletdoublet
Overlap geneGrin2b
Upstream gene1190002F15Rik, Apold1, Ddx47, Gprc5a, Gprc5d, LOC100043668, Hebp1, 8430419L09Rik, Gsg1, Pbp2, LOC100043890, Emp1
Downstream geneEG668137, LOC545887, E330021D16Rik, EG627022, LOC100043893, Atf7ip, 1100001H23Rik, LOC100043894, Gucy2c, Hist4h4, H2afj, Wbp11, BC049715, C030030A07Rik, Art4, Mgp, Erp27, Arhgdib, Pde6h, Rerg
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-397O11.T7 (MSMg01no397_o11.b1)MSMg01-397O11.TJ (MSMg01no397_o11.g1)
ACCAG498134AG498135
length774769
length of high quality
(start - end)
480 (66 - 545)242 (73 - 314)
definitionCHROMAT_FILE: MSMg01no397_o11.b1 PHD_FILE: MSMg01no397_o11.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:10:29 2005CHROMAT_FILE: MSMg01no397_o11.g1 PHD_FILE: MSMg01no397_o11.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:10:29 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(136,055,245 - 136,055,683)(135,893,237 - 135,893,478)
sequence
TAAATTTGCGGCGCTAAACGACTCCTATTTCGAGAAATCCGCGGAATTCC
TCATGTTCCTGCAAAGGTGCTATGCTTGGCTGAGCCATCTCCCCCAGCTC
CTCAAATAAAATTAGTGAATGCTTTTTTCCATACATGCTTTATCGAAACC
CCAGAATGCACTACTGTTTCTCTTTGACAGTTGGGGAAACTGAGGTCTGG
GATGTAAAGAAACTTGTCTTTAAAAAAATGCCCACAGGGAGAAAGGAGAG
AGCAGCCACTGAAAGCCAGGTCTGCTGGGTGACTGACACCAAGCAATGCT
GCTTCCCTCCGTGTTTCTGGCTTCTGGGGACCTCAGTTCTATCACTGATA
CTGCCAACTGACCATGGTGATGTCTTTATTTGGGAAAATCCACCCAGCAC
GTCCAAAACTCCTGGTGAGGTGACCTAATTTATTAGAGGATAAGGGGAGA
ATCCTAGGGAAAAAACTCTGACATTTTTTCTAGCATGTAGAAAAAAAGAG
AAGGCAGAAAGGTGTAGCTCTGGCTATTTCAACACTGGAATGTGGAAAGA
CATAGCTTGACAAATGCTATTCATCCCAAAATTATTTTTTTAAAGATTTA
TTTATTTATTTTATGGAAATGAGAACCCCCCTGTACCTGTAAGAAGGGGC
CTGTACCCCTCTCTCGGGTGGTTGGAAATGAAATTTCGAAACATTTGGTC
CCTTTTAACCAAACCCCCCTGGTTCACCCCCACTTTCCCTGGAAAAGACC
TCCCTCCCTCTGGTGATAATCTTT
ATGCAGTGGGAGGCCTGGNGGNCGCCTGGTTTCATACCTTAGGTGAACTA
TAGAAGGTTTCGAGAAAATTCACAGGACGGAGCCACTACGGTCAGGCTTG
GCCCCGGGGCTGAAGTTACTGGAGCAGAAATGGTGGCTTGACAGAGTTCC
CTCAGCAACACAGGTCATTCTCAGAAGAGCCTCCCACCTCCAACCAAAGC
CCTTTCCTTGGTCTCCATTGTGCCCCCATCCACTGGCTGACTGGCACTCA
TTCAAGTGTGGCCTTTTGTCACAGAGGCCTAAAGATAAATGGCTTCTTCA
CTGTGTTCATACCATAGTTGCATGCACACGCCTGGCAGTGCAGGGGCCCA
CACTGGCAGCATCTCTCCATTTTCTCTTGTACCTATGCACCCGCTGATGT
CTATTCAGTATGCAACACGTGGCTGACACAGGGTAGGGCATGGCAAGGAC
AATGTAGTTTGTGACAGAGTAAAATTTGTTTTAAAAAGGCGCAAACCAAA
AAAAACTAATTTCCTGAAATACTGAAAAATTTGTTGGGCCGGCCGAAGGG
GGCAGCCCCGTGTTAACGCTGAATTTTTGGTGTAAAGTCCAATTATAAGC
TACCCCCCTTTTTGATATATTTTTATACGAGGGCTAGGCCCCCCCCTTTT
TTTTTTTTCTTTATTATGCGGGCGAGATAAAACACCAGGACACATATGCC
CTTGTTTTATACATTTCCCGCCCCCCCTACAGAACTCTTATACTCCCATC
GTTTGTATACTATTCTCTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no397_o11.b1 MSMg01no397_o11.b1 CHROMAT_FILE:
MSMg01no397_o11.b1 PHD_FILE: MSMg01no397_o11.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:10:29 2005
         (480 letters)



>mm_chr6_136054804_136055683
          Length = 880

 Score =  826 bits (427), Expect = 0.0
 Identities = 436/439 (99%)
 Strand = Plus / Minus

                                                                       
Query: 42  taaaattagtgaatgcttttttccatacatgctttatcgaaaccccagaatgcactactg 101
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 880 taaaattagtgaatgcttttttccatacatgctttatcgaaaccccagaatgcactactg 821

                                                                       
Query: 102 tttctctttgacagttggggaaactgaggtctgggatgtaaagaaacttgtctttaaaaa 161
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 820 tttctctttgacagttggggaaactgaggtctgggatgtaaagaaacttgtctttaaaaa 761

                                                                       
Query: 162 aatgcccacagggagaaaggagagagcagccactgaaagccaggtctgctgggtgactga 221
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 760 aatgcccacagggagaaaggagagagcagccactgaaagccaggtctgctgggtgactga 701

                                                                       
Query: 222 caccaagcaatgctgcttccctccgtgtttctggcttctggggacctcagttctatcact 281
           |||||||||||||||||||||||||||  |||||||||||||||||||||||||||||||
Sbjct: 700 caccaagcaatgctgcttccctccgtggctctggcttctggggacctcagttctatcact 641

                                                                       
Query: 282 gatactgccaactgaccatggtgatgtctttatttgggaaaatccacccagcacgtccaa 341
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 640 gatactgccaactgaccatggtgatgtctttatttgggaaaatccacccagcacgtccaa 581

                                                                       
Query: 342 aactcctggtgaggtgacctaatttattagaggataaggggagaatcctagggaaaaaac 401
           || |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 580 aattcctggtgaggtgacctaatttattagaggataaggggagaatcctagggaaaaaac 521

                                                                       
Query: 402 tctgacattttttctagcatgtagaaaaaaagagaaggcagaaaggtgtagctctggcta 461
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 520 tctgacattttttctagcatgtagaaaaaaagagaaggcagaaaggtgtagctctggcta 461

                              
Query: 462 tttcaacactggaatgtgg 480
           |||||||||||||||||||
Sbjct: 460 tttcaacactggaatgtgg 442


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: 23
Number of extensions: 2
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: 480
Length of database: 880
Length adjustment: 10
Effective length of query: 470
Effective length of database: 870
Effective search space:   408900
Effective search space used:   408900
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= MSMg01no397_o11.g1 MSMg01no397_o11.g1 CHROMAT_FILE:
MSMg01no397_o11.g1 PHD_FILE: MSMg01no397_o11.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:10:29 2005
         (242 letters)



>mm_chr6_135893037_135893678
          Length = 642

 Score =  460 bits (238), Expect = e-134
 Identities = 241/242 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   caggacggagccactacggtcaggcttggccccggggctgaagttactggagcagaaatg 60
           |||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 201 caggacggagccactacggtcaggcttggccccggggctgaagttagtggagcagaaatg 260

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

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

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

             
Query: 241 ca 242
           ||
Sbjct: 441 ca 442


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: 11
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: 242
Length of database: 642
Length adjustment: 9
Effective length of query: 233
Effective length of database: 633
Effective search space:   147489
Effective search space used:   147489
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)