BAC Information

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BAC

Clone NameMSMg01-360L19
Chromosome9 (Build37)
Map Location 107,280,217 - 107,438,397
singlet/doubletdoublet
Overlap geneCacna2d2, Tmem115
Upstream geneRpl29, Acy1, Abhd14a, Abhd14b, Pcbp4, Parp3, Rrp9, Iqcf1, Iqcf5, Iqcf3, Iqcf4, LOC100041096, Grm2, Tex264, Rad54l2, LOC100041128, Vprbp, Armet, Dock3, Mapkapk3, Cish, Hemk1, 6430571L13Rik
Downstream geneCyb561d2, Tusc4, Zmynd10, Rassf1, Tusc2, Hyal2, Hyal1, Nat6, Hyal3, Ifrd2, BY080835, Sema3b, Gnai2, Slc38a3, Gnat1, Sema3f, Rbm5, Rbm6, 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
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-360L19.T7 (MSMg01no360_l19.b1)MSMg01-360L19.TJ (MSMg01no360_l19.g1)
ACCAG469841AG469842
length764762
length of high quality
(start - end)		530 (45 - 574)477 (72 - 548)
definitionCHROMAT_FILE: MSMg01no360_l19.b1 PHD_FILE: MSMg01no360_l19.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:55:34 2005CHROMAT_FILE: MSMg01no360_l19.g1 PHD_FILE: MSMg01no360_l19.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:55:34 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(107,437,871 - 107,438,397)(107,280,217 - 107,280,693)
sequence
TATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAA
TTCTTCCCCTGATGCCAGGAACCCCTTTCACAGGGGAGCAAAAGCAGGAG
CCCGTGATAAATGCTAAGGAATAAGGTTGGCGAGAAACTTCCTCAACAGT
CTCAGGAAGAACACTGGACACTGGGTCTCCTGGGAGCTGGGAACACTGTA
GAGAGTCCATAGGTCTCAGAAAGTAAGACCTGAATTCAAAGAGCATTCTC
CTGCCTTGGCTAACGTGTTCAGTGAATAATGCAGTGAGATTACTGATGCT
GCACTTGAGCAGGTGATGCAGAGGTCTCTGACCTGCCTGGTGTGGTCAGG
AGGCTCTCGCAGTGAGGCACACAACCTGTCTCCGTTGGTGATTGGGGTAA
ATTTAGTAATACCCCAATCATCCTACATTAAGAAGGGAAAGACTTAAGGA
CAAAGACCTCCTTCCCCATTTCCCATCACAGGAGAAAAGAGCCACAGTTT
CTGTCTATCACTGGACCAGTGCTTAGAATTTGGAAATTCTGAGGCAAGAC
CAAAGGTAACTGGGCATTCTGTAGCCAGGTTTAGTGGTCCGAGTTGTGAG
GTACACAGAGTCCAGAAAACTACACCTTTTGTTCCCTTCGAAGCCAAAAC
CTGAATCCCTTTTCTGTAACCGCTCCAACACCTGGCTGTAGGTCTTCCGC
CCAATTTATAAGAAACACTCCATGGGGTGGGAAGTGGTGTCCCCCCACAG
TCTTATTTTCTATA

CATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXAGAGACTGCTGCTATGGTTGCCTTCCTAG
TATACCTGGTACGGTTCCCACAGCAGTCCCAGAAGACTGGAAGCCCCAGG
TTCTACCGCTCTGTTAACCCAAGGATTTGCTTCCCCACTACTCCGGTGTC
CCAGACTTTGGCCCCCTGCGGGCAGCGGACAGTGCTGCTGGAGCTCGCTG
CTGCGGAGGGCAGCACCACCTGGACCGACGCACATGCGCGGAGCAGCCGC
CTGGCCCTGCCGCAGCAGCCCGTGCCCCCCGCCGCCTGTGCACGGAACGC
GCGAGCAAAGCAAACAAAGACGTATTGGTTTCTGCTCTATTAGAGGCGCA
GGAGGGGGGAAATCAATGTTTAGTAAATGGGAAAAGAGAAAATCGTTCAG
GAAAGACAGTCTATTTCCAAGCCGGAGAGAGGTTCGTAAACAGCACAGGC
CATTGCGGAGGAAGCACGGCGAGCCATAATACTCCCCCGAGCGGAGGAAT
GTTCACTTACCGCGGCCGGCTGGGCAGGGTGCAGCGCTAACCCGGTGGCC
TTTATACTAAAAGCCCAGGATTCCTCCCGGAAGCCAAAATGGCACGAAGG
CCCGGCTTGGCTATGGGAAAACCCCCCGGTGCCCCCTTTGGGTCTGGCCA
GTTTTGCCCCCATCCCTTTTCTTTTCACCCCTTGGCTTTGTGGCCCTTTT
CTATATAATGGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no360_l19.b1 MSMg01no360_l19.b1 CHROMAT_FILE:
MSMg01no360_l19.b1 PHD_FILE: MSMg01no360_l19.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:55:34 2005
         (530 letters)



>mm_chr9_107437668_107438597
          Length = 930

 Score = 1004 bits (519), Expect = 0.0
 Identities = 525/527 (99%)
 Strand = Plus / Minus

                                                                       
Query: 4   gaattcttcccctgatgccaggaacccctttcacaggggagcaaaagcaggagcccgtga 63
           ||||||||||||||| | ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 730 gaattcttcccctgaggtcaggaacccctttcacaggggagcaaaagcaggagcccgtga 671

                                                                       
Query: 64  taaatgctaaggaataaggttggcgagaaacttcctcaacagtctcaggaagaacactgg 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 670 taaatgctaaggaataaggttggcgagaaacttcctcaacagtctcaggaagaacactgg 611

                                                                       
Query: 124 acactgggtctcctgggagctgggaacactgtagagagtccataggtctcagaaagtaag 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 610 acactgggtctcctgggagctgggaacactgtagagagtccataggtctcagaaagtaag 551

                                                                       
Query: 184 acctgaattcaaagagcattctcctgccttggctaacgtgttcagtgaataatgcagtga 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 550 acctgaattcaaagagcattctcctgccttggctaacgtgttcagtgaataatgcagtga 491

                                                                       
Query: 244 gattactgatgctgcacttgagcaggtgatgcagaggtctctgacctgcctggtgtggtc 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 490 gattactgatgctgcacttgagcaggtgatgcagaggtctctgacctgcctggtgtggtc 431

                                                                       
Query: 304 aggaggctctcgcagtgaggcacacaacctgtctccgttggtgattggggtaaatttagt 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 430 aggaggctctcgcagtgaggcacacaacctgtctccgttggtgattggggtaaatttagt 371

                                                                       
Query: 364 aataccccaatcatcctacattaagaagggaaagacttaaggacaaagacctccttcccc 423
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 370 aataccccaatcatcctacattaagaagggaaagacttaaggacaaagacctccttcccc 311

                                                                       
Query: 424 atttcccatcacaggagaaaagagccacagtttctgtctatcactggaccagtgcttaga 483
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 310 atttcccatcacaggagaaaagagccacagtttctgtctatcactggaccagtgcttaga 251

                                                          
Query: 484 atttggaaattctgaggcaagaccaaaggtaactgggcattctgtag 530
           |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 250 atttggaaattctgaggcaagaccaaaggtaactgggcattctgtag 204


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: 530
Length of database: 930
Length adjustment: 10
Effective length of query: 520
Effective length of database: 920
Effective search space:   478400
Effective search space used:   478400
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= MSMg01no360_l19.g1 MSMg01no360_l19.g1 CHROMAT_FILE:
MSMg01no360_l19.g1 PHD_FILE: MSMg01no360_l19.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:55:34 2005
         (477 letters)



>mm_chr9_107280017_107280893
          Length = 877

 Score =  915 bits (473), Expect = 0.0
 Identities = 476/477 (99%)
 Strand = Plus / Plus

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

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

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

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

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

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

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

                                                                    
Query: 421 agcacaggccattgcggaggaagcacggcgagccataatactcccccgagcggagga 477
           |||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 621 agcacaggccattgcggaggaagcacggcgagccataaaactcccccgagcggagga 677


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: 22
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: 477
Length of database: 877
Length adjustment: 10
Effective length of query: 467
Effective length of database: 867
Effective search space:   404889
Effective search space used:   404889
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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