BAC Information

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BAC

Clone NameMSMg01-348L18
Chromosome9 (Build37)
Map Location 55,164,901 - 55,330,044
singlet/doubletdoublet
Overlap geneAI118078, Etfa
Upstream geneGldn, Dmxl2, 4933412E14Rik, Cib2, Idh3a, Acsbg1, LOC100039151, EG664850, Dnaja4, Wdr61, Crabp1, Rab7-ps1, Ireb2, C630028N24Rik, AY074887, Psma4, Chrna5, Chrna3, Chrnb4, EG640554, LOC664897, 1700071A11Rik, Ube2q2, Fbxo22, Nrg4
Downstream geneLOC546133, Isl2, Zfp291, LOC664980, 4930563M21Rik, LOC664995, LOC665005, Rcn2, Pstpip1, Tspan3, C230081A13Rik, Hmg20a, LOC100039535
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-348L18.T7 (MSMg01no348_l18.b1)MSMg01-348L18.TJ (MSMg01no348_l18.g1)
ACCAG460760AG460761
length729727
length of high quality
(start - end)		586 (37 - 622)474 (69 - 542)
definitionCHROMAT_FILE: MSMg01no348_l18.b1 PHD_FILE: MSMg01no348_l18.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:40:08 2005CHROMAT_FILE: MSMg01no348_l18.g1 PHD_FILE: MSMg01no348_l18.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:40:08 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(55,164,901 - 55,165,482)(55,329,571 - 55,330,044)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCTCTC
TTTGCTGAAGCACGGCCTCTTTTCATTTTTGATGCTCACTTTCAAGTGAA
TGAGATGTCTCCTACATTTGAACACTTGGTCCCCAGTTGATGGCAATGTT
TGGGAGGTTTAGAAAGTTGTTGTAGGAAGCACGTTACTGGGGCCAGGCTT
TAGAATGTAAAGGCTCAAACCATTTCAGGTTTGCCCTCTCTGTTTCATGC
TTGCTGTTTAGGATGTCAGCGCTTGGCTTGCTTCTCTGGTCGCTTTCCTT
GCTCTACCGTCTTGGACTCTGACCTGCTGGCACCCCACACCCAAACAACA
CAGGCTACCTTGCTCATAGTGTTTTATCATAATGGTAGGAAGTAACTAAC
ACAACGGTGTAACTAATAACTAACATAACTAATGCAGCAATTCTCCAGCC
TCCCCATCATCTTCCTGACTGTTTGACCCCTCACCCATATCTACTAGAAA
GTCCATTCTGGTGAAGACAAACTTTTGGTCTTACATGAATTTCTTCTTCA
CTTTTTGGTTGTTGTTCACTTGCTTGTTTTTCTTGACTTTGGAAACAGAG
TCTGGCTATTATAGCTGTGGTGGTTTGAACAGGAATGGTCCCCGCCCCAT
AGACTCAGGTGTTTGAATGCTTGGCCATATGGAGTGACTTTATTATGAGG
TGTGGGCTTGTTAGAGGAATGTGTCATTG

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXTGTGGGGATCAGCACTGTATGTATTTGTTGGA
CAATAATTTCAGTGATTTATGTCTTAGTCAGTGATCCTATACAGCTAACC
ATTATGATGGTGAATGTGTCCTCACAAGATCTGGAGGTTTTTGATCTTAA
TAAAATGCTTAGCAATTTTTAAATGAGGAACTTTTTGCAAAAAGATTTAA
AGCATTATGAAGTCACAATGCTGTGTTACTATTGCCATTGCTTTGTTGGT
ATTCTGTGTGTATGTTGTGGTAGAGAGAGAACTTAGGACTCTCTACATGC
TTGGTATGTGCTATCCACTGACCTACATTCCTATCTATTATTGCTATTAT
AAATTTACATTGATAATATTTATTGTTCATAAAGTCTAAAAGCAGTTCCA
ACAACTAACCTATTTTAATTGAGCCTATGTTCATGGACCTTTGTCATGTT
AGAAACTACTAATGACAGTTACAGTCTTGTGTGCTCCTGAGTACCTAGTT
TAGTTCTACATTTTTATGTTTGCATGAATTTCAGGGAATTTTGCTCTTTA
CAGATAAGCACTACTATAATATCCCCTTTTGTCCAGAGGATGGGACTTAT
TTTCTGTCTGTCGGAGAGCTTAACAGTCATCTTGCTTTAGCTTCCAAGGG
CTATGATTTCCCGCTCAACCCACCATN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no348_l18.b1 MSMg01no348_l18.b1 CHROMAT_FILE:
MSMg01no348_l18.b1 PHD_FILE: MSMg01no348_l18.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:40:08 2005
         (586 letters)



>mm_chr9_55164697_55165682
          Length = 986

 Score = 1017 bits (526), Expect = 0.0
 Identities = 568/582 (97%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattctctctttgctgaagcacggcctcttttcatttttgatgctcactttcaagtgaa 64
           ||||||||||  ||||||||||||||||||||  ||||||||||||||||||||||||||
Sbjct: 205 gaattctctcactgctgaagcacggcctctttggatttttgatgctcactttcaagtgaa 264

                                                                       
Query: 65  tgagatgtctcctacatttgaacacttggtccccagttgatggcaatgtttgggaggttt 124
           ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 tgagatgcctcctacatttgaacacttggtccccagttgatggcaatgtttgggaggttt 324

                                                                       
Query: 125 agaaagttgttgtaggaagcacgttactggggccaggctttagaatgtaaaggctcaaac 184
           ||||||||||||||||||| |||||||||||||||||||||||||||||||| ||||| |
Sbjct: 325 agaaagttgttgtaggaagtacgttactggggccaggctttagaatgtaaagactcaagc 384

                                                                       
Query: 185 catttcaggtttgccctctctgtttcatgcttgctgtttaggatgtcagcgcttggcttg 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 catttcaggtttgccctctctgtttcatgcttgctgtttaggatgtcagcgcttggcttg 444

                                                                       
Query: 245 cttctctggtcgctttccttgctctaccgtcttggactctgacctgctggcaccccacac 304
           |||||||||||||||||||||||||||| || ||||||||||||||||||||||||||||
Sbjct: 445 cttctctggtcgctttccttgctctaccatcatggactctgacctgctggcaccccacac 504

                                                                       
Query: 305 ccaaacaacacaggctaccttgctcatagtgttttatcataatggtaggaagtaactaac 364
           ||||||||||||||| |||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 505 ccaaacaacacaggccaccttgctcatagtgttttatcataacggtaggaagtaactaac 564

                                                                       
Query: 365 acaacggtgtaactaataactaacataactaatgcagcaattctccagcctccccatcat 424
           ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 565 acaactgtgtaactaataactaacataactaatgcagcaattctccagcctccccatcat 624

                                                                       
Query: 425 cttcctgactgtttgacccctcacccatatctactagaaagtccattctggtgaagacaa 484
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 625 cttcctgactgtttgacccctcacccatatctactagaaagtccattctggtgaagacaa 684

                                                                       
Query: 485 acttttggtcttacatgaatttcttcttcactttttggttgttgttcacttgcttgtttt 544
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 685 acttttggtcttacacgaatttcttcttcactttttggttgttgttcacttgcttgtttt 744

                                                     
Query: 545 tcttgactttggaaacagagtctggctattatagctgtggtg 586
           ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 745 tcttgactttggaaacagagtctggctattatagctgtggtg 786


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: 24
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: 586
Length of database: 986
Length adjustment: 10
Effective length of query: 576
Effective length of database: 976
Effective search space:   562176
Effective search space used:   562176
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= MSMg01no348_l18.g1 MSMg01no348_l18.g1 CHROMAT_FILE:
MSMg01no348_l18.g1 PHD_FILE: MSMg01no348_l18.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:40:08 2005
         (474 letters)



>mm_chr9_55329371_55330244
          Length = 874

 Score =  909 bits (470), Expect = 0.0
 Identities = 473/474 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   tgtggggatcagcactgtatgtatttgttggacaataatttcagtgatttatgtcttagt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 674 tgtggggatcagcactgtatgtatttgttggacaataatttcagtgatttatgtcttagt 615

                                                                       
Query: 61  cagtgatcctatacagctaaccattatgatggtgaatgtgtcctcacaagatctggaggt 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 614 cagtgatcctatacagctaaccattatgatggtgaatgtgtcctcacaagatctggaggt 555

                                                                       
Query: 121 ttttgatcttaataaaatgcttagcaatttttaaatgaggaactttttgcaaaaagattt 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 554 ttttgatcttaataaaatgcttagcaatttttaaatgaggaactttttgcaaaaagattt 495

                                                                       
Query: 181 aaagcattatgaagtcacaatgctgtgttactattgccattgctttgttggtattctgtg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 494 aaagcattatgaagtcacaatgctgtgttactattgccattgctttgttggtattctgtg 435

                                                                       
Query: 241 tgtatgttgtggtagagagagaacttaggactctctacatgcttggtatgtgctatccac 300
           |||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 434 tgtatgatgtggtagagagagaacttaggactctctacatgcttggtatgtgctatccac 375

                                                                       
Query: 301 tgacctacattcctatctattattgctattataaatttacattgataatatttattgttc 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 374 tgacctacattcctatctattattgctattataaatttacattgataatatttattgttc 315

                                                                       
Query: 361 ataaagtctaaaagcagttccaacaactaacctattttaattgagcctatgttcatggac 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 314 ataaagtctaaaagcagttccaacaactaacctattttaattgagcctatgttcatggac 255

                                                                 
Query: 421 ctttgtcatgttagaaactactaatgacagttacagtcttgtgtgctcctgagt 474
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 254 ctttgtcatgttagaaactactaatgacagttacagtcttgtgtgctcctgagt 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: 22
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: 474
Length of database: 874
Length adjustment: 10
Effective length of query: 464
Effective length of database: 864
Effective search space:   400896
Effective search space used:   400896
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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