BAC Information

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BAC

Clone NameMSMg01-302J03
Chromosome3 (Build37)
Map Location 87,624,789 - 87,787,186
singlet/doubletdoublet
Overlap geneSh2d2a, Prcc, Hdgf, Mrpl24, BC023814, Isg20l2, Crabp2, LOC100042242, Nes
Upstream geneDclk2, EG625055, Cd1d2, Cd1d1, LOC667897, Kirrel1, LOC100042355, Msr2, Cd5l, Fcrl1, Fcrl5, Etv3, EG546801, Arhgef11, EG625281, 3110045G13Rik, Ntrk1, Insrr
Downstream geneBcan, Hapln2, Gpatc4, Apoa1bp, Ttc24, Iqgap3, Mef2d, AI849053, LOC100042271, LOC100042277, Rhbg, 1700021C14Rik, Cct3, 0610031J06Rik, Tmem79, Smg5, Paqr6, Bglap-rs1, Bglap2, LOC627995, Bglap1, Pmf1, Slc25a44, LOC667989, Sema4a, LOC546802, Lmna, 2700083E18Rik, Rab25, Mapbpip, Ubqln4, LOC545536, Ssr2, Arhgef2, Rxfp4, 2810403A07Rik, Rit1, Syt11, 5830417I10Rik, Msto1, Dap3, Ash1l
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-302J03.T7 (MSMg01no302_j03.b1)MSMg01-302J03.TJ (MSMg01no302_j03.g1)
ACCAG428421AG428422
length733735
length of high quality
(start - end)
279 (45 - 323)534 (68 - 601)
definitionCHROMAT_FILE: MSMg01no302_j03.b1 PHD_FILE: MSMg01no302_j03.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:40:14 2005CHROMAT_FILE: MSMg01no302_j03.g1 PHD_FILE: MSMg01no302_j03.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:40:14 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(87,786,912 - 87,787,186)(87,624,789 - 87,625,322)
sequence
TATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCCCCTCACCCAGGACCTTACAGGTAGAAAACCCAGGCTCTGAGGAAT
CAAGGGGCCCAAGAGAGTCCCACCCAGGATGGGTGTCCCAAGCAGGATGG
GGGAGGGAGTGCTTTAAGAGGCCATGCTTGGCTTGCGCCTTTGGCTGTAG
TACAAAGCCTAGACTTTGATTTCCTTTGGGACTCTGGCAGCTACAGGGTG
AGCATCAGACTGGGCAGGAGGGAGCCTCTGCCCCTGACCTCACCCTTGGA
GGCGCCTCAGCCTGCTCAGCCTTATTTTGAAGTGCCCCAAACAAACTGAG
GAAGCCACCTTCTCNGTGGGCTCCAATTACAAGACACCTNNTATTAGTTT
AGAGGNTATATTTANTGGNGGNGGAAAATGNAAAACCAAACACTGTCGCG
GGGCGTGGGTGTGTTGGGGAGCATTTCCTCTCTTGCTCCCGCCTCACTCC
TGGGGGTCCTCTATCCTCAGAAGCATGTACAGTTGTCACTCAGGGGGCTT
CCAGGCACCAACCGGACCTTGCTTCCCTGAAGCACTCACTATCGTGCTGG
AACCTTCTGAGAGGCCTTGGCCCTGTTTTTGCCCTCTTGGGCCACATGTT
CAGCCTTCTGTGGGTCCCCAGGGCCTCCGTGGGCCTCTCCTCACTCCATA
CTTCTCTGCTCTAATCCAGCTCCTGCCCCTGCN
TGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXATGAGGGGGAAGAAAATTAAACAACGAGCTGAA
GCCAATCTGAGCCAAAAGCAGAGTACAGAGCAATGCATGGTAACGTACTG
TACCATCTACCACATCGTCCCATTGAAAGTCTACTCCACAGCTCACGGAG
TGACATCATCCAAGTCATCTTCAGGGCTTTGTGGGGCATTGTGAGGTGTT
GCTCAAGCTAGATGTAAAGCTCTCAGCCCCGGGGCTGCAGGAAGGAATCT
GCAGTGTGGCTTTTACTGTTTGAAACAAAGTCGACACCAGTGGTTCTCAA
CCTGTGGGCCGCAACCCCCTTAGGTGATTCCCATATCAGACCTGTTTATT
GGATATTTACATTACAATTTATAACTGTAGCAAGATTACAGCTGTGGAGT
ATCAATGATATAATTTTATGGTTGGGGTGACCGAAATATAGGAGCAATAT
TAAGGGGCCACAGCAATCCACTGGTCTACACACTGAGCCAGGCTAGACAA
AAAGTAGGAGCCCTGGAATCTCTCATCCTCTGGGCTTTCAAGATCCTTCT
TCTTCTATTTACTTATTTATTTTATGTATATGAGTACACCACTGCTCTCT
TCAGACACAGCATAAGAGGGTATCAGACCCCATTACAGATGGTTGTGATC
CTCCATGTGGNTTGCCGGGAATGGAACCCAAATTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no302_j03.b1 MSMg01no302_j03.b1 CHROMAT_FILE:
MSMg01no302_j03.b1 PHD_FILE: MSMg01no302_j03.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:40:14 2005
         (279 letters)



>mm_chr3_87786708_87787386
          Length = 679

 Score =  509 bits (263), Expect = e-148
 Identities = 272/275 (98%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcccctcacccaggaccttacaggtagaaaacccaggctctgaggaatcaaggggc 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 479 gaattcccctcacccaggaccttacaggtagaaaacccaggctctgaggaatcaaggggc 420

                                                                       
Query: 65  ccaagagagtcccacccaggatgggtgtcccaagcaggatgggggagggagtgctttaag 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 419 ccaagagagtcccacccaggatgggtgtcccaagcaggatgggggagggagtgctttaag 360

                                                                       
Query: 125 aggccatgcttggcttgcgcctttggctgtagtacaaagcctagactttgatttcctttg 184
           |||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 359 aggccacgcttggcttgcgcctttggctgtagtacaaagcctagactttgatttcctttg 300

                                                                       
Query: 185 ggactctggcagctacagggtgagcatcagactgggcaggagggagcctctgcccctgac 244
           ||||||||||||||||||||  ||||||||||||||||||||||||||||||||||||||
Sbjct: 299 ggactctggcagctacagggacagcatcagactgggcaggagggagcctctgcccctgac 240

                                              
Query: 245 ctcacccttggaggcgcctcagcctgctcagcctt 279
           |||||||||||||||||||||||||||||||||||
Sbjct: 239 ctcacccttggaggcgcctcagcctgctcagcctt 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: 14
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: 279
Length of database: 679
Length adjustment: 9
Effective length of query: 270
Effective length of database: 670
Effective search space:   180900
Effective search space used:   180900
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)
Query= MSMg01no302_j03.g1 MSMg01no302_j03.g1 CHROMAT_FILE:
MSMg01no302_j03.g1 PHD_FILE: MSMg01no302_j03.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:40:14 2005
         (534 letters)



>mm_chr3_87624589_87625522
          Length = 934

 Score =  971 bits (502), Expect = 0.0
 Identities = 526/534 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   atgagggggaagaaaattaaacaacgagctgaagccaatctgagccaaaagcagagtaca 60
           |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 atgagggggaagaaaactaaacaacgagctgaagccaatctgagccaaaagcagagtaca 260

                                                                       
Query: 61  gagcaatgcatggtaacgtactgtaccatctaccacatcgtcccattgaaagtctactcc 120
           |||||||||||||||||||||| |||||||||||||||| ||||||||||||||||||||
Sbjct: 261 gagcaatgcatggtaacgtactataccatctaccacatcttcccattgaaagtctactcc 320

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

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

                                                                       
Query: 241 ggcttttactgtttgaaacaaagtcgacaccagtggttctcaacctgtgggccgcaaccc 300
           ||||||||| | ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 ggcttttacagcttgaaacaaagtcgacaccagtggttctcaacctgtgggccgcaaccc 500

                                                                       
Query: 301 ccttaggtgattcccatatcagacctgtttattggatatttacattacaatttataactg 360
           || ||||||||||||||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 501 ccctaggtgattcccatatcagacctgtttatcggatatttacattacaatttataactg 560

                                                                       
Query: 361 tagcaagattacagctgtggagtatcaatgatataattttatggttggggtgaccgaaat 420
           ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 561 tagcaagattacagctgtggagtatcaatgaaataattttatggttggggtgaccgaaat 620

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

                                                                 
Query: 481 caaaaagtaggagccctggaatctctcatcctctgggctttcaagatccttctt 534
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 caaaaagtaggagccctggaatctctcatcctctgggctttcaagatccttctt 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: 23
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)