BAC Information

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BAC

Clone NameMSMg01-396A09
Chromosome9 (Build37)
Map Location 57,039,728 - 57,040,305
singlet/doubletsinglet
Overlap genenone
Upstream geneC230081A13Rik, Hmg20a, LOC100039535, LOC100039549, LOC640537, Lingo1, Odf3l1, Cspg4, Sh3px3, Imp3, Snupn, Ptpn9, 2700012I20Rik, Sin3a, Man2c1, Neil1, Commd4, 1700041C23Rik
Downstream geneTrcg1, 1700017B05Rik, EG330948, Ppcdc, Scamp5, D9Wsu149, LOC620603, Rpp25, Cox5a, 2310046O06Rik, Mpi1, Scamp2, Ulk3, Cplx3, Lman1l, Csk, Cyp1a2, Cyp1a1, Edc3, Clk3, Arid3b, LOC665235, LOC677423, LOC100039509, Ubl7, Sema7a, Cyp11a1, 4930535E21Rik, Stra6, Islr
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-396A09.T7 (MSMg01no396_a09.b1)MSMg01-396A09.TJ (MSMg01no396_a09.g1)
ACCAG496700AG496701
length755751
length of high quality
(start - end)
579 (64 - 642)511 (64 - 574)
definitionCHROMAT_FILE: MSMg01no396_a09.b1 PHD_FILE: MSMg01no396_a09.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:08:03 2005CHROMAT_FILE: MSMg01no396_a09.g1 PHD_FILE: MSMg01no396_a09.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:08:03 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXTTCGAGCATCCGCGGAATTCTAC
CACTTATCCCAACCAGATTGCAATCAGGAAAGTTGACACTACTTTCTCAA
TGGCTGCCCAACCTGTCTTTCATCAGCACTGATCAATATGCAGATTCTCT
ATCCACCTTGAGCATATATGTTATGTTTTAAATGTGCATGTGTGCATGGT
ATTCATATGGGGTTCTGACTCTTGTGTTCCCTGTATGAAGGTCTGAGCCC
TACTTTGTGGAGTTCACTTTCTGTTCCTGTCTTTTCTTGGATCCTCTGAA
TAGAACTCAAACTGTCTGGCTTGGGAGACAAGCTTGTTTCCACTTATCCA
TCTTTCGGGCTCAAACCTATAGTTTTGACCTTGATAATGTATATAGTTTT
ATCATAGAACACATTTAATATCAGGTAATGCGATTGATCTGTTCATTCTT
TGATGTTAAACAGCTTATTTTACAGTGAAAGACACTGATAATAGAATTTG
AATATACATGGTACATTTATATCTTTCTGTTTTTTGTTTACTGTAGTGTC
ATTTATATTCATAGTTTCAATTCAGATTTTGACTAGCCAAGAGCATGAAG
CTGGAGGAAGGGATAACTCACTTACCTGTGGTAACACAGCTCCACATGCA
AGTTTCCATTATAGAGAAAGATAGTCATGGTGATTGAGATGATGCCAGTT
ACTAACATGTCACTGTCCCACAGAGTTTAGCTCACAAACCTCAGGACCTC
CCTCA
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXCAAGCCAGCCAGGCTGTCCTAGTGAGACTATGTCTCA
AAAAAATAAGAAAAGAAAAGGGCAAGATGTACTTTGAAGGAAGTATAGGA
AAGCTGTGTGAAACTACCTCTCTGGTTGGCCTTTTATTTGCTATGTGGAC
CAGGCTTGCCTGGAGCTTGTGAAGGTACATCTTTCTCTGCCTCTTGAACA
CTAGCATTACAGATGTGAAACATTGTATCTGGCTTTCTTTTGTAGCAGTT
GCCTGGAAGATCTTATATTTCATTATAGAGTGGCAGTTCTCAACCTGTAG
TTTATAACCCCTTTGAGCTGCATTTCAGATATCGTGCATCATATATTTAC
ATTATAATTCATAACAGTAGCAAAATTACAGCTATTGAAGTAGCACTGAA
ATAATTCTATGGTGTGGGAGGGTCACCACAACATGAGGAACTGTATTAAA
AGAAGGAACTGCATTAGGAAGGATGAGAACTGCTGTTCTAAAGGGAGATT
TCTTAAGGCTCAAGAAGTTTAAAGATCTAAGTTGAAACATTCCTTCCAGG
AATGAGAAGAGATTCATGAGACTAGGGAAGTAAACCACTCACTAGTCTCT
AAAAGTTCCTGAAACTAACCAGATACTCAGAAATGTTTTTCCCTTTTTCT
CCCTTCAGAAGTAGGACAGGCTGTTGCTATAGGTAAAACAGATTCTTAAT
C
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no396_a09.b1 MSMg01no396_a09.b1 CHROMAT_FILE:
MSMg01no396_a09.b1 PHD_FILE: MSMg01no396_a09.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:08:03 2005
         (579 letters)



>mm_chr9_57039528_57040505
          Length = 978

 Score = 1035 bits (535), Expect = 0.0
 Identities = 568/581 (97%), Gaps = 5/581 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   cagattgcaatcaggaaagttgacactactttctcaatggctgcccaacctgtctttcat 60
           ||||||||||||||||||||||||   |||||||||||||||||||||||||||||||||
Sbjct: 778 cagattgcaatcaggaaagttgac---actttctcaatggctgcccaacctgtctttcat 722

                                                                       
Query: 61  cagcactgatcaatatgcagattctctatccaccttgagcatatatgttatgttttaaat 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 721 cagcactgatcaatatgcagattctctatccaccttgagcatatatgttatgttttaaat 662

                                                                       
Query: 121 gtgcatgtgtgcatggtattcatatggggttctgactcttgtgttccctgtatgaaggtc 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 661 gtgcatgtgtgcatggtattcatatggggttctgactcttgtgttccctgtatgaaggtc 602

                                                                       
Query: 181 tgagccctactttgtggagttcactttctgttcctgtcttttcttggatcctctgaatag 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 601 tgagccctactttgtggagttcactttctgttcctgtcttttcttggatcctctgaatag 542

                                                                       
Query: 241 aactcaaactgtctggcttgggagacaagcttgtttccacttatccatctttcgggctca 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| 
Sbjct: 541 aactcaaactgtctggcttgggagacaagcttgtttccacttatccatctttcgggctcg 482

                                                                       
Query: 301 aacctatagttttgaccttgataatgtatatagttttatcatagaacacatttaatatca 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481 aacctatagttttgaccttgataatgtatatagttttatcatagaacacatttaatatca 422

                                                                       
Query: 361 ggtaatgcgattgatctgttcattctttgatgttaaacagcttattttacagtgaaagac 420
           |||||||| ||| |||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct: 421 ggtaatgcaatttatctgttcattctttgatgtaaaacagcttattttacagtgaaagac 362

                                                                       
Query: 421 actgataatagaatttgaatatacatggtacatttatatct--ttctgttttttgtttac 478
           |||||||||||||||||||||||||||||||||||| ||||  ||||| |||||||||||
Sbjct: 361 actgataatagaatttgaatatacatggtacatttacatctctttctggtttttgtttac 302

                                                                       
Query: 479 tgtagtgtcatttatattcatagtttcaattcagattttgactagccaagagcatgaagc 538
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 tgtagtgtcatttatattcatagtttcaattcagattttgactagccaagagcatgaagc 242

                                                    
Query: 539 tggaggaagggataactcacttacctgtggtaacacagctc 579
           ||| |||||||||||| ||||||||||||||||||||||||
Sbjct: 241 tggcggaagggataacccacttacctgtggtaacacagctc 201


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: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 579
Length of database: 978
Length adjustment: 10
Effective length of query: 569
Effective length of database: 968
Effective search space:   550792
Effective search space used:   550792
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)